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Sample records for anomalous small-angle x-ray

  1. Anomalous small angle x-ray scattering studies of amorphous metal-germanium alloys

    SciTech Connect

    Rice, M.

    1993-12-01

    This dissertation addresses the issue of composition modulation in sputtered amorphous metal-germanium thin films with the aim of understanding the intermediate range structure of these films as a function of composition. The investigative tool used in this work is anomalous small-angle X-ray scattering (ASAXS). The primary focus of this investigation is the amorphous iron-germanium (a-Fe{sub x}Ge{sub 100-x}) system with particular emphasis on the semiconductor-rich regime. Brief excursions are made into the amorphous tungsten-germanium (a-W{sub x}Ge{sub 100-x}) and the amorphous molybdenum-germanium (a-Mo{sub x}Ge{sub 100-x}) systems. All three systems exhibit an amorphous structure over a broad composition range extending from pure amorphous germanium to approximately 70 atomic percent metal when prepared as sputtered films. Across this composition range the structures change from the open, covalently bonded, tetrahedral network of pure a-Ge to densely packed metals. The structural changes are accompanied by a semiconductor-metal transition in all three systems as well as a ferromagnetic transition in the a-Fe{sub x}Ge{sub 100-x} system and a superconducting transition in the a-Mo{sub x}Ge{sub 100-x} system. A long standing question, particularly in the a-Fe{sub x}Ge{sub 100-x} and the a-Mo{sub x}Ge{sub 100-x} systems, has been whether the structural changes (and therefore the accompanying electrical and magnetic transitions) are accomplished by homogeneous alloy formation or phase separation. The application of ASAXS to this problem proves unambiguously that fine scale composition modulations, as distinct from the simple density fluctuations that arise from cracks and voids, are present in the a-Fe{sub x}Ge{sub 100-x}, a-W{sub x}Ge{sub 100-x}, and a-Mo{sub x}Ge{sub 100-x} systems in the semiconductor-metal transition region. Furthermore, ASAXS shows that germanium is distributed uniformly throughout each sample in the x<25 regime of all three systems.

  2. Anomalous small-angle X-ray scattering of nanoporous two-phase atomistic models for amorphous silicon–germanium alloys

    SciTech Connect

    Chehaidar, A.

    2015-09-15

    The present work deals with a detailed analysis of the anomalous small-angle X-ray scattering in amorphous silicon–germanium alloy using the simulation technique. We envisage the nanoporous two-phase alloy model consisting in a mixture of Ge-rich and Ge-poor domains and voids at the nanoscale. By substituting Ge atoms for Si atoms in nanoporous amorphous silicon network, compositionally heterogeneous alloys are generated with various composition-contrasts between the two phases. After relaxing the as-generated structure, we compute its radial distribution function, and then we deduce by the Fourier transform technique its anomalous X-ray scattering pattern. Using a smoothing procedure, the computed X-ray scattering patterns are corrected for the termination errors due to the finite size of the model, allowing so a rigorous quantitative analysis of the anomalous small-angle scattering. Our simulation shows that, as expected, the anomalous small-angle X-ray scattering technique is a tool of choice for characterizing compositional heterogeneities coexisting with structural inhomogeneities in an amorphous alloy. Furthermore, the sizes of the compositional nanoheterogeneities, as measured by anomalous small-angle X-ray scattering technique, are X-ray energy independent. A quantitative analysis of the separated reduced anomalous small-angle X-ray scattering, as defined in this work, provided a good estimate of their size.

  3. New method for analyzing the periodic structure of multilayer by differential anomalous small-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Kato, K.; Matsubara, E.; Saito, M.; Kosaka, T.; Waseda, Y.; Inomata, K.

    1995-03-01

    A new method has been proposed for analyzing the periodic structure of a multilayered sample by the differential anomalous small-angle X-ray scattering method in the reflection geometry. The scattering peaks due to the periodically layered structure in the small angle region are often observed with a large background intensity. These peak intensities strongly depend upon the anomalous dispersion terms of the constituent element near its absorption edge. Thus, by taking a difference of these peak intensities observed at two energies near the edge, the scattering intensity attributed to various causes can be accurately eliminated except the periodically layered structure. Namely, only the intrinsic peak intensities are precisely determined by this method. Furthermore, this method is the most effective for analyzing the periodic structures of multilayers composed of the next neighboring elements in the periodic table. The experimental details and the usefulness of the present new method have been presented by obtaining the concentration profile of a Cu/Co multilayer using the peak intensity variation arising from the anomalous dispersion terms of Cu and Co near their K absorption edges.

  4. Copper and copper oxide nanoparticles in a cellulose support studied using anomalous small-angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Vainio, U.; Pirkkalainen, K.; Kisko, K.; Goerigk, G.; Kotelnikova, N. E.; Serimaa, R.

    2007-04-01

    Microcrystalline cellulose is a porous natural material which can be used both as a support for nanoparticles and as a reducer of metal ions. Cellulose supported nanoparticles can act as catalysts in many reactions. Cu, CuO, and Cu2O particles were prepared in microcrystalline cellulose by adding a solution of copper salt to the insoluble cellulose matrix and by reducing the copper ions with several reducers. The porous nanocomposites were studied using anomalous small angle X-ray scattering (ASAXS), X-ray absorption spectroscopy, and X-ray diffraction. Reduction of Cu2+ with cellulose in ammonium hydrate medium yielded crystalline CuO nanoparticles and the crystallite size was about 6-20 nm irrespective of the copper concentration. The size distribution of the CuO particles was determined with ASAXS measurements and coincided with the crystallite sizes. Using sodium borohydrate or hydrazine sulfate as a reducer both metallic Cu and Cu2O nanoparticles were obtained and the crystallite size and the oxidation state depended on the amount of reducer.

  5. Anomalous small angle x-ray scattering studies of heavy metal ion solvation behavior in clay minerals

    SciTech Connect

    Carrado, K.A.; Thiyagarajan, P.; Winans, R.E.; Song, Kang

    1997-09-01

    The authors have exploited anomalous small angle x-ray scattering (ASAXS) to monitor the solvation behavior of Cu(II), Er(III) and Yb(III) ions within the interlayers of the natural aluminosilicate clay mineral montmorillonite. The ASAXS technique can reveal the distribution of specific metallic species within a heterogeneous and disordered matrix. The variations of signal intensity as a function of absorption energy were monitored for all of the metal-clays as a function of hydration. Two different hydration levels were probed: as prepared at ambient conditions, or so-called {open_quotes}dry{close_quotes} powders, and {open_quotes}wet{close_quotes} pastes. ASAXS intensities should increase with absorption energy if the metal ion is associated with the interlayer solvent (water in this case), and decrease if the metal ion is associated with the solid matrix. The results show that: (1) Cu(II) is solvated within the interlayers of the wet sample, as expected, and (2) Er(III) and Yb(III) decrease in ASAXS intensity with increased hydration. This latter result was not expected and there is speculation that these ions have associated as hydrolyzed products with the clay surface. The basic principles underlying SAXS and ASAXS will also be presented in this paper.

  6. Trends in anomalous small-angle X-ray scattering in grazing incidence for supported nanoalloyed and core-shell metallic nanoparticles

    NASA Astrophysics Data System (ADS)

    Andreazza, P.; Khelfane, H.; Lyon, O.; Andreazza-Vignolle, C.; Ramos, A. Y.; Samah, M.

    2012-06-01

    As atomic structure and morphology of particles are directly correlated to their functional properties, experimental methods probing local and average features of particles at the nanoscale elicit a growing interest. Anomalous small-angle X-ray scattering (ASAXS) is a very attractive technique to investigate the size, shape and spatial distribution of nanoobjects embedded in a homogeneous matrix or in porous media. The anomalous variation of the scattering factor close to an absorption edge enables element specific investigations. In the case of supported nano-objects, the use of grazing incidence is necessary to limit the probed depth. The combination of grazing incidence with the anomalous technique provides a powerful new method, anomalous grazing incidence small-angle X-ray scattering (AGISAXS), to disentangle complex chemical patterns in supported multi-component nano-structures. Nevertheless, a proper data analysis requires accurate quantitative measurements associated to an adapted theoretical framework. This paper presents anomalous methods applied to nanoalloys phase separation in the 1-10 nm size range, and focuses on the application of AGISAXS in bimetallic systems: nanocomposite films and core-shell supported nanoparticles.

  7. Small Angle X-Ray Scattering Detector

    DOEpatents

    Hessler, Jan P.

    2004-06-15

    A detector for time-resolved small-angle x-ray scattering includes a nearly constant diameter, evacuated linear tube having an end plate detector with a first fluorescent screen and concentric rings of first fiber optic bundles for low angle scattering detection and an annular detector having a second fluorescent screen and second fiber optic bundles concentrically disposed about the tube for higher angle scattering detection. With the scattering source, i.e., the specimen under investigation, located outside of the evacuated tube on the tube's longitudinal axis, scattered x-rays are detected by the fiber optic bundles, to each of which is coupled a respective photodetector, to provide a measurement resolution, i.e., dq/q, where q is the momentum transferred from an incident x-ray to an x-ray scattering specimen, of 2% over two (2) orders of magnitude in reciprocal space, i.e., q.sub.max /q.sub.min.congruent.100.

  8. In-situ study of precipitates in Al–Zn–Mg–Cu alloys using anomalous small-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Chun-Ming, Yang; Feng-Gang, Bian; Bai-Qing, Xiong; Dong-Mei, Liu; Yi-Wen, Li; Wen-Qiang, Hua; Jie, Wang

    2016-06-01

    In the present work, the precipitate compositions and precipitate amounts of these elements (including the size distribution, volume fraction, and inter-precipitate distance) on the Cu-containing 7000 series aluminum alloys (7150 and 7085 Al alloys), are investigated by anomalous small-angle x-ray scattering (ASAXS) at various energies. The scattering intensity of 7150 alloy with T6 aging treatment decreases as the incident x-ray energy approaches the Zn absorption edge from the lower energy side, while scattering intensity does not show a noticeable energy dependence near the Cu absorption edge. Similar results are observed in the 7085 alloy in an aging process (120 °C) by employing in-situ ASAXS measurements, indicating that the precipitate compositions should include Zn element and should not be strongly related to Cu element at the early stage after 10 min. In the aging process, the precipitate particles with an initial average size of ∼ 8 Å increase with aging time at an energy of 9.60 keV, while the increase with a slower rate is observed at an energy of 9.65 keV as near the Zn absorption edge. Project supported by the National Natural Science Foundation of China (Grant Nos. 11005143, 11405259, and 51274046) and the Scientific Research Foundation for the Returned Overseas Chinese Scholars, State Education Ministry of China (Grant No. [2014]1685).

  9. Small angle x-ray scattering with edge-illumination

    PubMed Central

    Modregger, Peter; Cremona, Tiziana P.; Benarafa, Charaf; Schittny, Johannes C.; Olivo, Alessandro; Endrizzi, Marco

    2016-01-01

    Sensitivity to sub-pixel sample features has been demonstrated as a valuable capability of phase contrast x-ray imaging. Here, we report on a method to obtain angular-resolved small angle x-ray scattering distributions with edge-illumination- based imaging utilizing incoherent illumination from an x-ray tube. Our approach provides both the three established image modalities (absorption, differential phase and scatter strength), plus a number of additional contrasts related to unresolved sample features. The complementarity of these contrasts is experimentally validated by using different materials in powder form. As a significant application example we show that the extended complementary contrasts could allow the diagnosis of pulmonary emphysema in a murine model. In support of this, we demonstrate that the properties of the retrieved scattering distributions are consistent with the expectation of increased feature sizes related to pulmonary emphysema. Combined with the simplicity of implementation of edge-illumination, these findings suggest a high potential for exploiting extended sub-pixel contrasts in the diagnosis of lung diseases and beyond. PMID:27491917

  10. Small angle x-ray scattering with edge-illumination

    NASA Astrophysics Data System (ADS)

    Modregger, Peter; Cremona, Tiziana P.; Benarafa, Charaf; Schittny, Johannes C.; Olivo, Alessandro; Endrizzi, Marco

    2016-08-01

    Sensitivity to sub-pixel sample features has been demonstrated as a valuable capability of phase contrast x-ray imaging. Here, we report on a method to obtain angular-resolved small angle x-ray scattering distributions with edge-illumination- based imaging utilizing incoherent illumination from an x-ray tube. Our approach provides both the three established image modalities (absorption, differential phase and scatter strength), plus a number of additional contrasts related to unresolved sample features. The complementarity of these contrasts is experimentally validated by using different materials in powder form. As a significant application example we show that the extended complementary contrasts could allow the diagnosis of pulmonary emphysema in a murine model. In support of this, we demonstrate that the properties of the retrieved scattering distributions are consistent with the expectation of increased feature sizes related to pulmonary emphysema. Combined with the simplicity of implementation of edge-illumination, these findings suggest a high potential for exploiting extended sub-pixel contrasts in the diagnosis of lung diseases and beyond.

  11. Small angle x-ray scattering with edge-illumination.

    PubMed

    Modregger, Peter; Cremona, Tiziana P; Benarafa, Charaf; Schittny, Johannes C; Olivo, Alessandro; Endrizzi, Marco

    2016-01-01

    Sensitivity to sub-pixel sample features has been demonstrated as a valuable capability of phase contrast x-ray imaging. Here, we report on a method to obtain angular-resolved small angle x-ray scattering distributions with edge-illumination- based imaging utilizing incoherent illumination from an x-ray tube. Our approach provides both the three established image modalities (absorption, differential phase and scatter strength), plus a number of additional contrasts related to unresolved sample features. The complementarity of these contrasts is experimentally validated by using different materials in powder form. As a significant application example we show that the extended complementary contrasts could allow the diagnosis of pulmonary emphysema in a murine model. In support of this, we demonstrate that the properties of the retrieved scattering distributions are consistent with the expectation of increased feature sizes related to pulmonary emphysema. Combined with the simplicity of implementation of edge-illumination, these findings suggest a high potential for exploiting extended sub-pixel contrasts in the diagnosis of lung diseases and beyond. PMID:27491917

  12. Small Angle X-ray Scattering for Nanoparticle Research.

    PubMed

    Li, Tao; Senesi, Andrew J; Lee, Byeongdu

    2016-09-28

    X-ray scattering is a structural characterization tool that has impacted diverse fields of study. It is unique in its ability to examine materials in real time and under realistic sample environments, enabling researchers to understand morphology at nanometer and angstrom length scales using complementary small and wide angle X-ray scattering (SAXS, WAXS), respectively. Herein, we focus on the use of SAXS to examine nanoscale particulate systems. We provide a theoretical foundation for X-ray scattering, considering both form factor and structure factor, as well as the use of correlation functions, which may be used to determine a particle's size, size distribution, shape, and organization into hierarchical structures. The theory is expanded upon with contemporary use cases. Both transmission and reflection (grazing incidence) geometries are addressed, as well as the combination of SAXS with other X-ray and non-X-ray characterization tools. We conclude with an examination of several key areas of research where X-ray scattering has played a pivotal role, including in situ nanoparticle synthesis, nanoparticle assembly, and operando studies of catalysts and energy storage materials. Throughout this review we highlight the unique capabilities of X-ray scattering for structural characterization of materials in their native environment.

  13. A preliminary study of breast cancer diagnosis using laboratory based small angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Round, A. R.; Wilkinson, S. J.; Hall, C. J.; Rogers, K. D.; Glatter, O.; Wess, T.; Ellis, I. O.

    2005-09-01

    Breast tissue collected from tumour samples and normal tissue from bi-lateral mastectomy procedures were examined using small angle x-ray scattering. Previous work has indicated that breast tissue disease diagnosis could be performed using small angle x-ray scattering (SAXS) from a synchrotron radiation source. The technique would be more useful to health services if it could be made to work using a conventional x-ray source. Consistent and reliable differences in x-ray scatter distributions were observed between samples from normal and tumour tissue samples using the laboratory based 'SAXSess' system. Albeit from a small number of samples, a sensitivity of 100% was obtained. This result encourages us to pursue the implementation of SAXS as a laboratory based diagnosis technique.

  14. X-ray small-angle scattering from sputtered CeO{sub 2}/C bilayers

    SciTech Connect

    Haviar, S.; Dubau, M.; Khalakhan, I.; Vorokhta, M.; Matolinova, I.; Matolin, V.; Vales, V.; Endres, J.; Holy, V.; Buljan, M.; Bernstorff, S.

    2013-01-14

    Surface and interface morphology of cerium oxide/carbon bilayers used as thin-film catalysts is studied by grazing-incidence small-angle x-ray scattering, scanning electron microscopy, and atomic-force microscopy, and the dependence of the structural parameters on the thicknesses of the constituting layers is investigated. The applicability of x-ray scattering and its advantages over standard analytical methods are discussed.

  15. Mapping the local nanostructure inside a specimen by tomographic small-angle x-ray scattering

    SciTech Connect

    Schroer, C.G.; Kuhlmann, M.; Roth, S.V.; Gehrke, R.; Stribeck, N.; Almendarez-Camarillo, A.; Lengeler, B.

    2006-04-17

    Small-angle x-ray scattering is combined with scanning microtomography to reconstruct the small-angle diffraction pattern in the direction of the tomographic rotation axis at each location on a virtual section through a specimen. These data yield information about the local nanoscale structure of the sample. With rotational symmetry present in the diffraction patterns, e.g., for isotropic or fiber-textured scatterers, the full reciprocal space information in the small-angle scattering regime can be reconstructed at each location inside the specimen. The method is illustrated investigating a polymer rod made by injection molding.

  16. Small angle x-ray scattering with a beryllium compound refractive lens as focusing optic

    SciTech Connect

    Timmann, Andreas; Doehrmann, Ralph; Schubert, Tom; Schulte-Schrepping, Horst; Hahn, Ulrich; Kuhlmann, Marion; Gehrke, Rainer; Roth, Stephan Volkher; Schropp, Andreas; Schroer, Christian; Lengeler, Bruno

    2009-04-15

    At BW4 at HASYLAB a beryllium compound refractive lens (Be-CRL) is used for the focusing in small-angle x-ray scattering experiments. Using it provides the advantages of higher long-term stability and a much easier alignment compared to a setup with focusing mirrors. In our investigations presented here, we show the advantages of using a Be-CRL in small-angle and also ultra small-angle x-ray scattering. We investigated the beam characteristics at the sample position with respect to spot size and photon flux. The spot size is comparable to that of a setup with focusing mirrors but with a gain in flux and better long-term stability. It is also shown that plane mirrors are still necessary to suppress higher order energies passing the monochromator.

  17. Counterion Distribution Around Protein-SNAs probed by Small-angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Krishnamoorthy, Kurinji; Bedzyk, Michael; Kewalramani, Sumit; Moreau, Liane; Mirkin, Chad

    Protein-DNA conjugates couple the advanced cell transfection capabilities of spherical DNA architecture and the biocompatible enzymatic activity of a protein core to potentially create therapeutic agents with dual functionality. An understanding of their stabilizing ionic environment is crucial to better understand and predict their properties. Here, we use Small-angle X-ray scattering techniques to decipher the structure of the counterion cloud surrounding these DNA coated nanoparticles. Through the use of anomalous scattering techniques we have mapped the local concentrations of Rb+ ions in the region around the Protein-DNA constructs. These results are further corroborated with simulations using a geometric model for the excess charge density as function of radial distance from the protein core. Further, we investigate the influence of solution ionic strength on the structure of the DNA corona and demonstrate a reduction in the extension of the DNA corona with increasing concentration of NaCl in solution for the case of both single and double stranded DNA shells. Our work reveals the distribution of counterions in the vicinity of Protein-DNA conjugates and decouples the effect of solution ionic strength on the thickness of the DNA layer.

  18. X-ray crystal structure and small-angle X-ray scattering of sheep liver sorbitol dehydrogenase

    SciTech Connect

    Yennawar, Hemant; Møller, Magda; Gillilan, Richard; Yennawar, Neela

    2011-05-01

    The X-ray crystal structure and a small-angle X-ray scattering solution structure of sheep liver sorbitol dehydrogenase have been determined. The details of the interactions that enable the tetramer scaffold to be the functional biological unit have been analyzed. The X-ray crystal structure of sheep liver sorbitol dehydrogenase (slSDH) has been determined using the crystal structure of human sorbitol dehydrogenase (hSDH) as a molecular-replacement model. slSDH crystallized in space group I222 with one monomer in the asymmetric unit. A conserved tetramer that superposes well with that seen in hSDH (despite belonging to a different space group) and obeying the 222 crystal symmetry is seen in slSDH. An acetate molecule is bound in the active site, coordinating to the active-site zinc through a water molecule. Glycerol, a substrate of slSDH, also occupies the substrate-binding pocket together with the acetate designed by nature to fit large polyol substrates. The substrate-binding pocket is seen to be in close proximity to the tetramer interface, which explains the need for the structural integrity of the tetramer for enzyme activity. Small-angle X-ray scattering was also used to identify the quaternary structure of the tetramer of slSDH in solution.

  19. From small angle x-ray scattering to reflectivity: Instrumentation and sample study

    SciTech Connect

    Hua, D.W.; Beaucage, G.; Kent, M.S.

    1996-02-01

    In this study, we described the first results from an x-ray reflectometer which has been modified from an existing Kratky small angle x-ray scattering (SAXS) camera at the UNM/Sandia scattering center. Typically, seven orders of magnitude of reflectivity can be obtained over a range of 0.02 to 0.5 A{sup {minus}1} in {ital q}. This allows the resolution of surface features of 10 to 1000 A. The conversion to reflectometer is reversible and can be achieved in a short time, allowing for dual use of an existing Kratky camera. {copyright} {ital 1996 Materials Research Society.}

  20. Sample environments and techniques combined with small angle X-ray scattering.

    PubMed

    Bras, W; Ryan, A J

    1998-03-31

    The number of synchrotron radiation-based Small Angle X-ray Scattering beamlines has increased considerably over the last decade. With the high X-ray flux and collimation of these beamlines it not only has become possible to perform time-resolved experiments on time scales down to the millisecond/frame range, but also it allows experimenters to utilise new sample environments and use simultaneous several experimental techniques on one sample. An overview of recent developments in this field is given.

  1. BIOISIS: Biological Macromolecules by Small Angle X-ray Scattering (SAXS)

    DOE Data Explorer

    Tainer, John [Scripps Research Institute; Hura, Greg [LBNL; Rambo, Robert P. [LBNL

    BIOISIS is an open access database dedicated to the study of biological macromolecules by small angle X-ray scattering (SAXS). BIOISIS aims to become the complete source for the deposition, distribution and maintenance of small angle X-ray scattering data and technologies. The database is designed around the concept of an ôexperimentö and relates a specific experiment to a set of genes, organisms, computational models and experimental data. As of May 2012, BIOSIS contains 7,118 genes covering four different organisms. Forty-two modeled structures are available. Clicking on a structures reveals scattering curves, experimental conditions, and experimental values. The data are collected at Beamline 12.3.1 of the Advanced Light Source (ALS).[Copied with editing from http://www.bioisis.net/about

  2. Small-angle X-ray scattering method to characterize molecular interactions: Proof of concept.

    PubMed

    Allec, Nicholas; Choi, Mina; Yesupriya, Nikhil; Szychowski, Brian; White, Michael R; Kann, Maricel G; Garcin, Elsa D; Daniel, Marie-Christine; Badano, Aldo

    2015-01-01

    Characterizing biomolecular interactions is crucial to the understanding of biological processes. Existing characterization methods have low spatial resolution, poor specificity, and some lack the capability for deep tissue imaging. We describe a novel technique that relies on small-angle X-ray scattering signatures from high-contrast molecular probes that correlate with the presence of biomolecular interactions. We describe a proof-of-concept study that uses a model system consisting of mixtures of monomer solutions of gold nanoparticles (GNPs) as the non-interacting species and solutions of GNP dimers linked with an organic molecule (dimethyl suberimidate) as the interacting species. We report estimates of the interaction fraction obtained with the proposed small-angle X-ray scattering characterization method exhibiting strong correlation with the known relative concentration of interacting and non-interacting species. PMID:26160052

  3. Small-angle x-ray scattering of intercalation compounds of graphite, fluorographite, and graphite oxide

    SciTech Connect

    Perevozkin, V.Yu.; Yur'ev, G.S.; Nazarov, A.S.; Danilenko, A.M.; Lisitsa, V.V.; Makotchenko, V.G.; Paasonen, V.M.; Yakovlev, I.I.

    1988-05-01

    Graphite intercalation compounds are interesting as cathode materials in chemical current sources and catalysts and are good conductors of electricity. Small-angle x-ray scattering was studied on natural graphite, intercalation compounds of fluorinated graphite, graphite oxide, and the products of reduction of the compounds. It was shown that scattering takes place in regions with a lower density and the size of the density inhomogeneities was determined.

  4. Energy-dispersive small-angle X-ray scattering with cone collimation using X-ray capillary optics

    NASA Astrophysics Data System (ADS)

    Li, Fangzuo; Liu, Zhiguo; Sun, Tianxi

    2016-09-01

    Energy-dispersive small-angle X-ray scattering (ED-SAXS) with an innovative design of cone collimation based on an ellipsoidal single-bounce capillary (ESBC) and a polycapillary parallel X-ray lens (PPXRL) had been explored. Using this new cone collimation system, scattering angle 2θ has a theoretical minimum angle related to the mean half-opening angle of the hollow cone beam of 1.42 mrad, and with the usable X-ray energy ranging from 4 to 30 keV, the resulting observable scattering vector q is down to a minimum value of about 0.003 Å-1 (or a Bragg spacing of about 2100 Å). However, the absorption of lower energies by X-ray capillary optics, sample transmission, and detector response function limits the application range to lower energy. Cone collimation ED-SAXS experiments carried out on pure water, Lupolen, and in situ temperature-dependent measurement of diacetylenic acid/melamine micelle solid were presented at three different scattering angles 2θ of 0.18°, 0.70° and 1.18° to illustrate the new opportunities offered by this technique as well as its limitations. Also, a comparison has been made by replacing the PPXRL with a pinhole, and the result shows that cone collimation ED-SAXS based on ESBC with PPXRL was helpful in improving the signal-to-noise ratio (i.e., reducing the parasitic background scattering) than ESBC with a pinhole. The cone collimation instrument based on X-ray capillary optics could be considered as a promising tool to perform SAXS experiments, especially cone collimation ED-SAXS has potential application for the in situ temperature-dependent studying on the kinetics of phase transitions.

  5. Characterization of porous materials using combined small-angle X-ray and neutron scattering techniques

    SciTech Connect

    Hu, Naiping; Borkar, Neha; Kohls, Doug; Schaefer, Dale W.

    2014-09-24

    A combination of ultra small angle X-ray scattering (USAXS) and ultra small angle neutron scattering (USANS) is used to characterize porous materials. The analysis methods yield quantitative information, including the mean skeletal chord length, mean pore chord length, skeletal density, and composition. A mixed cellulose ester (MCE) membrane with a manufacturer-labeled pore size of 0.1 {mu}m was used as a model to elucidate the specifics of the method. Four approaches describing four specific scenarios (different known parameters and form of the scattering data) are compared. Pore chords determined using all four approaches are in good agreement with the scanning electron microscopy estimates but are larger than the manufacturer's nominal pore size. Our approach also gives the average chord of the skeletal solid (struts) of the membrane, which is also consistent for all four approaches. Combined data from USAXS and USANS gives the skeletal density and the strut composition.

  6. Correlation between fractal dimension and surface characterization by small angle X-ray scattering in marble.

    PubMed

    Salinas-Nolasco, Manlio Favio; Méndez-Vivar, Juan

    2010-03-16

    Among several analysis techniques applied to the study of surface passivation using dicarboxylic acids, small angle X-ray scattering (SAXS) has proved to be relevant in the physicochemical interpretation of the surface association resulting between calcium carbonate and the molecular structure of malonic acid. It is possible to establish chemical affinity principles through bidimensional geometric analysis in terms of the fractal dimension obtained experimentally by SAXS. In this Article, we present results about the adsorption of malonic acid on calcite, using theoretical and mathematical principles of the fractal dimension.

  7. Characterising density fluctuations in liquid yttria aluminates with small angle x-ray scattering

    SciTech Connect

    Greaves, G. Neville; Wilding, Martin C.; Vu Van, Quang; Majerus, Odile; Hennet, Louis

    2009-01-29

    Small angle x-ray scattering (SAXS) has been measured in the wavevector range 0.01

  8. Small angle X-ray and neutron scattering on cadmium sulfide nanoparticles in silicate glass

    NASA Astrophysics Data System (ADS)

    Kuznetsova, Yu. V.; Rempel, A. A.; Meyer, M.; Pipich, V.; Gerth, S.; Magerl, A.

    2016-08-01

    Small angle X-ray and neutron scattering on Cd and S doped glass annealed at 600 °C shows after the first 12 h nucleation and growth of spherical CdS nanoparticles with a radius of up to 34±4 Å. After the nucleation is completed after 24 h, further growth in this amorphous environment is governed by oriented particle attachment mechanism as found for a liquid medium. Towards 48 h the particle shape has changed into spheroidal with short and long axis of 40±2 Å and 120±2 Å, respectively.

  9. Nanopores in track-etched polymer membranes characterized by small-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Cornelius, T. W.; Schiedt, B.; Severin, D.; Pépy, G.; Toulemonde, M.; Apel, P. Yu; Boesecke, P.; Trautmann, C.

    2010-04-01

    Nanochannels and nanowires with diameters ranging from 30 to 400 nm were produced by etching ion tracks in thin polyarylate and polycarbonate foils. The shape and the size distribution of dry and wet nanochannels, as well as of nanowires grown therein, were examined by small-angle x-ray scattering. The x-ray intensity as a function of the scattering vector exhibits pronounced oscillations showing that both the channels and the wires have a highly cylindrical geometry and a very narrow size distribution. UV exposure before chemical etching significantly improves the monodispersity of the nanopores. For fixed etching conditions, the scattering patterns provide evidence that the diameter of dry and water-filled channels as well as for embedded nanowires are identical, demonstrating that the pores in the polymer are completely filled.

  10. Small-angle scattering studies of meso-scopic structures with synchrotron X-rays

    NASA Astrophysics Data System (ADS)

    Dore, J. C.; North, A. N.; Rigden, J. S.

    1995-03-01

    The use of small-angle X-ray scattering techniques for the study of spatial inhomogeneities over the range 20 Å to 2 μm is reviewed. The basic formalism for scattering by an inhomogeneous medium is developed with particular reference to liquid suspensions, porous solids and solid aggregates. The instrumentation available on the Synchrotron Radiation Source at the Daresbury Laboratory is briefly presented and the use of the Bonse-Hart method for studies at ultra-low scattering angles described. The extraction of structural information for a range of natural and synthetic materials is presented with particular reference to microemulsions, porous silicas, clays and composites. The complementarity of X-ray and neutron techniques is critically reviewed and prospects for future developments, particularly for the study of anisotropic systems, are discussed.

  11. Pinhole-type two-dimensional ultra-small-angle X-ray scattering on the micrometer scale.

    PubMed

    Kishimoto, Hiroyuki; Shinohara, Yuya; Suzuki, Yoshio; Takeuchi, Akihisa; Yagi, Naoto; Amemiya, Yoshiyuki

    2014-01-01

    A pinhole-type two-dimensional ultra-small-angle X-ray scattering set-up at a so-called medium-length beamline at SPring-8 is reported. A long sample-to-detector distance, 160.5 m, can be used at this beamline and a small-angle resolution of 0.25 µm(-1) was thereby achieved at an X-ray energy of 8 keV. PMID:24365910

  12. Pinhole-type two-dimensional ultra-small-angle X-ray scattering on the micrometer scale

    PubMed Central

    Kishimoto, Hiroyuki; Shinohara, Yuya; Suzuki, Yoshio; Takeuchi, Akihisa; Yagi, Naoto; Amemiya, Yoshiyuki

    2014-01-01

    A pinhole-type two-dimensional ultra-small-angle X-ray scattering set-up at a so-called medium-length beamline at SPring-8 is reported. A long sample-to-detector distance, 160.5 m, can be used at this beamline and a small-angle resolution of 0.25 µm−1 was thereby achieved at an X-ray energy of 8 keV. PMID:24365910

  13. A small-angle x-ray scattering system with a vertical layout

    NASA Astrophysics Data System (ADS)

    Wang, Zhen; Chen, Xiaowei; Meng, Lingpu; Cui, Kunpeng; Wu, Lihui; Li, Liangbin

    2014-12-01

    A small-angle x-ray scattering (SAXS) system with a vertical layout (V-SAXS) has been designed and constructed for in situ detection on nanostructures, which is well suitable for in situ study on self-assembly of nanoparticles at liquid interface and polymer processing. A steel-tower frame on a reinforced basement is built as the supporting skeleton for scattering beam path and detector platform, ensuring the system a high working stability and a high operating accuracy. A micro-focus x-ray source combining parabolic three-dimensional multi-layer mirror and scatteringless collimation system provides a highly parallel beam, which allows us to detect the very small angle range. With a sample-to-detector distance of 7 m, the largest measurable length scale is 420 nm in real space. With a large sample zone, it is possible to install different experimental setups such as film stretching machine, which makes the system perfect to follow the microstructures evolution of materials during processing. The capability of the V-SAXS on in situ study is tested with a drying experiment of a free latex droplet, which confirms our initial design.

  14. A small-angle x-ray scattering system with a vertical layout.

    PubMed

    Wang, Zhen; Chen, Xiaowei; Meng, Lingpu; Cui, Kunpeng; Wu, Lihui; Li, Liangbin

    2014-12-01

    A small-angle x-ray scattering (SAXS) system with a vertical layout (V-SAXS) has been designed and constructed for in situ detection on nanostructures, which is well suitable for in situ study on self-assembly of nanoparticles at liquid interface and polymer processing. A steel-tower frame on a reinforced basement is built as the supporting skeleton for scattering beam path and detector platform, ensuring the system a high working stability and a high operating accuracy. A micro-focus x-ray source combining parabolic three-dimensional multi-layer mirror and scatteringless collimation system provides a highly parallel beam, which allows us to detect the very small angle range. With a sample-to-detector distance of 7 m, the largest measurable length scale is 420 nm in real space. With a large sample zone, it is possible to install different experimental setups such as film stretching machine, which makes the system perfect to follow the microstructures evolution of materials during processing. The capability of the V-SAXS on in situ study is tested with a drying experiment of a free latex droplet, which confirms our initial design.

  15. A small-angle x-ray scattering system with a vertical layout

    SciTech Connect

    Wang, Zhen; Chen, Xiaowei; Meng, Lingpu; Cui, Kunpeng; Wu, Lihui; Li, Liangbin

    2014-12-15

    A small-angle x-ray scattering (SAXS) system with a vertical layout (V-SAXS) has been designed and constructed for in situ detection on nanostructures, which is well suitable for in situ study on self-assembly of nanoparticles at liquid interface and polymer processing. A steel-tower frame on a reinforced basement is built as the supporting skeleton for scattering beam path and detector platform, ensuring the system a high working stability and a high operating accuracy. A micro-focus x-ray source combining parabolic three-dimensional multi-layer mirror and scatteringless collimation system provides a highly parallel beam, which allows us to detect the very small angle range. With a sample-to-detector distance of 7 m, the largest measurable length scale is 420 nm in real space. With a large sample zone, it is possible to install different experimental setups such as film stretching machine, which makes the system perfect to follow the microstructures evolution of materials during processing. The capability of the V-SAXS on in situ study is tested with a drying experiment of a free latex droplet, which confirms our initial design.

  16. Synchrotron Small-Angle X-ray Scattering Study of Cross-Linked Polymeric Micelles.

    PubMed

    Kim, Hyun-Chul; Jin, Kyeong Sik; Lee, Se Guen; Kim, Eunjoo; Lee, Sung Jun; Jeong, Sang Won; Lee, Seung Woo; Kim, Kwang-Woo

    2016-06-01

    Polymeric micelles of methoxypoly(ethylene glycol)-b-poly(lactide) containing lysine units (mPEG-PLA-Lys4) were cross-linked by reacting of lysine moieties with a bifunctional bis(N-hydroxy-succinimide ester). The micelles were characterized in aqueous solution using dynamic light scattering, transmission electron microscopy, and synchrotron small-angle X-ray scattering. The mPEG-PLA-Lys4 was synthesized through the ring-opening polymerization of N6-carbobenzyloxy-L-lysine N-carboxyanhydride with amine-terminated mPEG-PLA and subsequent deprotection. The polymeric micelles showed enhanced micelle stability after cross-linking, which was confirmed by adding sodium dodecyl sulfate as a destabilizing agent. The average diameters measured via dynamic light scattering were 19.1 nm and 29.2 nm for non-cross-linked polymeric micelles (NCPMs) and cross-linked polymeric micelles (CPMs), respectively. The transmission electron microscopy images showed that the size of the polymeric micelles increased slightly due to cross-linking, which was in good agreement with the DLS measurements. The overall structures and internal structural changes of NCPMs and CPMs in aqueous solution were studied in detail using synchrotron X-ray scattering method. According to the structural parameters of X-ray scattering analysis, CPMs with a more densely packed core structure were formed by reacting bifunctional cross-linking agents with lysine amino groups located in the innermost core of the polymeric micelles. PMID:27427731

  17. The accurate assessment of small-angle X-ray scattering data

    DOE PAGESBeta

    Grant, Thomas D.; Luft, Joseph R.; Carter, Lester G.; Matsui, Tsutomu; Weiss, Thomas M.; Martel, Anne; Snell, Edward H.

    2015-01-23

    Small-angle X-ray scattering (SAXS) has grown in popularity in recent times with the advent of bright synchrotron X-ray sources, powerful computational resources and algorithms enabling the calculation of increasingly complex models. However, the lack of standardized data-quality metrics presents difficulties for the growing user community in accurately assessing the quality of experimental SAXS data. Here, a series of metrics to quantitatively describe SAXS data in an objective manner using statistical evaluations are defined. These metrics are applied to identify the effects of radiation damage, concentration dependence and interparticle interactions on SAXS data from a set of 27 previously described targetsmore » for which high-resolution structures have been determined via X-ray crystallography or nuclear magnetic resonance (NMR) spectroscopy. Studies show that these metrics are sufficient to characterize SAXS data quality on a small sample set with statistical rigor and sensitivity similar to or better than manual analysis. The development of data-quality analysis strategies such as these initial efforts is needed to enable the accurate and unbiased assessment of SAXS data quality.« less

  18. The accurate assessment of small-angle X-ray scattering data

    SciTech Connect

    Grant, Thomas D.; Luft, Joseph R.; Carter, Lester G.; Matsui, Tsutomu; Weiss, Thomas M.; Martel, Anne; Snell, Edward H.

    2015-01-23

    Small-angle X-ray scattering (SAXS) has grown in popularity in recent times with the advent of bright synchrotron X-ray sources, powerful computational resources and algorithms enabling the calculation of increasingly complex models. However, the lack of standardized data-quality metrics presents difficulties for the growing user community in accurately assessing the quality of experimental SAXS data. Here, a series of metrics to quantitatively describe SAXS data in an objective manner using statistical evaluations are defined. These metrics are applied to identify the effects of radiation damage, concentration dependence and interparticle interactions on SAXS data from a set of 27 previously described targets for which high-resolution structures have been determined via X-ray crystallography or nuclear magnetic resonance (NMR) spectroscopy. Studies show that these metrics are sufficient to characterize SAXS data quality on a small sample set with statistical rigor and sensitivity similar to or better than manual analysis. The development of data-quality analysis strategies such as these initial efforts is needed to enable the accurate and unbiased assessment of SAXS data quality.

  19. The accurate assessment of small-angle X-ray scattering data

    SciTech Connect

    Grant, Thomas D.; Luft, Joseph R.; Carter, Lester G.; Matsui, Tsutomu; Weiss, Thomas M.; Martel, Anne; Snell, Edward H.

    2015-01-01

    A set of quantitative techniques is suggested for assessing SAXS data quality. These are applied in the form of a script, SAXStats, to a test set of 27 proteins, showing that these techniques are more sensitive than manual assessment of data quality. Small-angle X-ray scattering (SAXS) has grown in popularity in recent times with the advent of bright synchrotron X-ray sources, powerful computational resources and algorithms enabling the calculation of increasingly complex models. However, the lack of standardized data-quality metrics presents difficulties for the growing user community in accurately assessing the quality of experimental SAXS data. Here, a series of metrics to quantitatively describe SAXS data in an objective manner using statistical evaluations are defined. These metrics are applied to identify the effects of radiation damage, concentration dependence and interparticle interactions on SAXS data from a set of 27 previously described targets for which high-resolution structures have been determined via X-ray crystallography or nuclear magnetic resonance (NMR) spectroscopy. The studies show that these metrics are sufficient to characterize SAXS data quality on a small sample set with statistical rigor and sensitivity similar to or better than manual analysis. The development of data-quality analysis strategies such as these initial efforts is needed to enable the accurate and unbiased assessment of SAXS data quality.

  20. In situ microfluidic dialysis for biological small-angle X-ray scattering

    PubMed Central

    Skou, Magda; Skou, Søren; Jensen, Thomas G.; Vestergaard, Bente; Gillilan, Richard E.

    2014-01-01

    Owing to the demand for low sample consumption and automated sample changing capabilities at synchrotron small-angle X-ray (solution) scattering (SAXS) beamlines, X-ray microfluidics is receiving continuously increasing attention. Here, a remote-controlled microfluidic device is presented for simultaneous SAXS and ultraviolet absorption measurements during protein dialysis, integrated directly on a SAXS beamline. Microfluidic dialysis can be used for monitoring structural changes in response to buffer exchange or, as demonstrated, protein concentration. By collecting X-ray data during the concentration procedure, the risk of inducing protein aggregation due to excessive concentration and storage is eliminated, resulting in reduced sample consumption and improved data quality. The proof of concept demonstrates the effect of halted or continuous flow in the microfluidic device. No sample aggregation was induced by the concentration process at the levels achieved in these experiments. Simulations of fluid dynamics and transport properties within the device strongly suggest that aggregates, and possibly even higher-order oligomers, are preferentially retained by the device, resulting in incidental sample purification. Hence, this versatile microfluidic device enables investigation of experimentally induced structural changes under dynamically controllable sample conditions. PMID:25242913

  1. Optical and Geometric Properties of Free Silica Nanoparticles Studied by Small-Angle X-Ray Scattering

    NASA Astrophysics Data System (ADS)

    Langer, Burkhard; Raschpichler, Christopher; Gruner, Mathias; Antonsson, Egill; Goroncy, Christian; Graf, Christina; Rühl, Eckart

    2016-09-01

    Elastic small-angle X-ray scattering (SAXS) of free silica (SiO2) nanoparticles is reported (d = 100-180 nm). The particles were prepared by a modified Stöber synthesis in narrow size distributions with controlled surface roughness and functionalization. Angle-resolved small-angle X-ray scattering patterns are shown to be sensitive to these changes in particle properties. It is reported that there is an exponential decrease in scattered X-ray intensity towards larger scattering angles as well as distinct oscillations, which is fully explained by Mie theory. Small-angle X-ray scattering of mesoporous nanoparticles with rough surfaces is compared to that of microporous nanoparticles with smooth surfaces, revealing distinct differences that are rationalized by diffuse scattering from nanoparticle pores in addition to the dominating contribution of Mie scattering. Furthermore, results from small-angle X-ray scattering experiments on functionalized silica nanoparticles are presented, where the incorporation of the dye fluorescein isothiocyanate is found to cause changes in the optical properties of the nanoparticles, as compared to non-functionalized samples. Small, but distinct deviations in particle size derived from electron microscopy and from small-angle X-ray scattering are observed. These are rationalized by particle shrinking occurring in electron microscopy as well as slight changes in optical properties of the nanoparticle samples.

  2. Time resolved small angle x-ray scattering reactivity studies on coals, asphaltenes, and polymers.

    SciTech Connect

    Seifert, S.; Thiyagarajan, P.; Winans, R. E.

    1999-07-02

    The objective of this study is to examine changes in the structures of coals, asphaltenes, and polymers in situ with small angle X-ray scattering (SAXS) during thermal treatments. We have built a SAXS instrument at the Basic Energy Sciences Synchrotrons Radiation Center at the Advanced Photon Source that allows us to obtain scattering data on very small samples and in the millisecond time domain. The Argonne Premium Coal samples, petroleum derived asphaltenes, and polymers with functionality to model fossil fuels were used in this study. The information that can be derived from these experiments includes: changes in fractal dimensionality, surface topology, and size and type of porosity. The information is correlated with other methods on the same samples.

  3. Small-Angle X-Ray Scattering From RNA, Proteins, And Protein Complexes

    SciTech Connect

    Lipfert, Jan; Doniach, Sebastian; /Stanford U., Phys. Dept. /Stanford U., Appl. Phys. Dept. /SLAC, SSRL

    2007-09-18

    Small-angle X-ray scattering (SAXS) is increasingly used to characterize the structure and interactions of biological macromolecules and their complexes in solution. Although still a low-resolution technique, the advent of high-flux synchrotron sources and the development of algorithms for the reconstruction of 3-D electron density maps from 1-D scattering profiles have made possible the generation of useful low-resolution molecular models from SAXS data. Furthermore, SAXS is well suited for the study of unfolded or partially folded conformational ensembles as a function of time or solution conditions. Here, we review recently developed algorithms for 3-D structure modeling and applications to protein complexes. Furthermore, we discuss the emerging use of SAXS as a tool to study membrane protein-detergent complexes. SAXS is proving useful to study the folding of functional RNA molecules, and finally we discuss uses of SAXS to study ensembles of denatured proteins.

  4. Sample holder for small-angle x-ray scattering static and flow cell measurements

    SciTech Connect

    Lipfert, Jan; Millett, Ian S.; Seifert, Soenke; Doniach, Sebastian

    2006-04-15

    We present the design of a sample holder for small-angle x-ray scattering (SAXS) that can be used for both static and flow cell measurements, allowing to switch between these two types of measurement without having to realign the detector and camera geometry. The device makes possible high signal-to-noise experiments with sample volumes as small as 16 {mu}l and can be thermocontrolled using a standard circulating water bath. The setup has been used successfully for a range of biological SAXS measurements, including peptides, detergent micelles, membrane proteins, and nucleic acids. As a performance test, we present scattering data for horse heart cytochrome c, collected at the BESSRC CAT beam line 12-ID of the Advanced Photon Source. The design drawings are provided in the supplementary material.

  5. Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS)

    SciTech Connect

    Hura, Greg L.; Menon, Angeli L.; Hammel, Michal; Rambo, Robert P.; Poole II, Farris L.; Tsutakawa, Susan E.; Jenney Jr, Francis E.; Classen, Scott; Frankel, Kenneth A.; Hopkins, Robert C.; Yang, Sungjae; Scott, Joseph W.; Dillard, Bret D.; Adams, Michael W. W.; Tainer, John A.

    2009-07-20

    We present an efficient pipeline enabling high-throughput analysis of protein structure in solution with small angle X-ray scattering (SAXS). Our SAXS pipeline combines automated sample handling of microliter volumes, temperature and anaerobic control, rapid data collection and data analysis, and couples structural analysis with automated archiving. We subjected 50 representative proteins, mostly from Pyrococcus furiosus, to this pipeline and found that 30 were multimeric structures in solution. SAXS analysis allowed us to distinguish aggregated and unfolded proteins, define global structural parameters and oligomeric states for most samples, identify shapes and similar structures for 25 unknown structures, and determine envelopes for 41 proteins. We believe that high-throughput SAXS is an enabling technology that may change the way that structural genomics research is done.

  6. The crystallization of hectorite clays as monitored by small angle X-ray scattering and NMR

    SciTech Connect

    Carrado, K. A.; Xu, L.; Seifert, S.; Gregory, D.; Song, K.; Botto, R. E.

    1999-12-13

    The authors have probed the 48-hr crystallization of a magnesium silicate clay called hectorite. Small angle X-ray scattering (SAXS) at the Advanced Photon Source using aliquots ex situ has revealed that data is consistent with ex situ XRD, TGA, AFM, and IR data in that all these techniques see clay crystallite beginning to form in the first few hours of reaction. Tetraethylammonium (TEA) ions are used to aid crystallization and become incorporated as the exchange cations within the interlayers. {sup 13}C NMR shows that 80% of the final TEA loading is accomplished in the first 10 hrs. {sup 29}Si NMR displays a visible clay silicate peak after just 1 hr. In addition, the first in situ study of clay crystallization of any kind was performed by in situ SAXS. Results are consistent with the ex situ data as well as showing the sensitivity of SAXS to sol gel reactions occurring on the order of minutes.

  7. Small angle x-ray diffraction studies of mucopolysaccharides in collagen.

    PubMed Central

    Lam, R; Claffey, W J; Geil, P H

    1978-01-01

    Small angle X-ray diffraction (SAXD) was used to locate mucopolysaccharides (MPS) at regular intervals along the collagen axis under physiological conditions. Ruthenium red was used to stain the MPS specifically. The difference in electron density between ruthenium red-stained and unstained moist native rat tail tendon should correspond to the position of the MPS. This difference was calculated from the SAXD intensity data by using difference Fourier transform calculations. Phases calculated independently from the amino acid sequence of collagen by two laboratories were used in this calculation, and the results were compared. At least four to seven bands of MPS per 660 A were found at regular intervals along the collagen axis. Some of these bands match in position to the cross-striations observed by freeze-etching. Electron micrographs of ruthenium red-stained native fibrils also showed bands close in position to the ones calculated. Images FIGURE 3 FIGURE 4 FIGURE 6 FIGURE 7 PMID:83884

  8. Small Angle X-ray Scattering in Structural Investigation of Selected Biological Systems

    SciTech Connect

    Kozak, Maciej

    2007-11-26

    Small angle X-ray scattering method (SAXS) is a technique complementary to the protein crystallography, allowing determination of the structural parameters such as the radius of gyration or the maximum size characterizing the macromolecules, and providing information on the conformational changes taking place in solution. The use of SAXS method enables a comparison of the protein crystal structure with the data collected in solution. Recent development of the measurement techniques (mainly those based on synchrotron radiation) and calculation methods has permitted introduction of advanced techniques also in the field of structural analysis of biomolecules (e.g. for determination of the shape of the protein molecule in solution). The paper presents a few selected methods of structural analysis of biological systems based on the SAXS data and illustrates their performance on the example of xylanase from Trichoderma longibrachiatum and a model phospholipid system.

  9. Small Angle X-ray Scattering in Structural Investigation of Selected Biological Systems

    NASA Astrophysics Data System (ADS)

    Kozak, Maciej

    2007-11-01

    Small angle X-ray scattering method (SAXS) is a technique complementary to the protein crystallography, allowing determination of the structural parameters such as the radius of gyration or the maximum size characterizing the macromolecules, and providing information on the conformational changes taking place in solution. The use of SAXS method enables a comparison of the protein crystal structure with the data collected in solution. Recent development of the measurement techniques (mainly those based on synchrotron radiation) and calculation methods has permitted introduction of advanced techniques also in the field of structural analysis of biomolecules (e.g. for determination of the shape of the protein molecule in solution). The paper presents a few selected methods of structural analysis of biological systems based on the SAXS data and illustrates their performance on the example of xylanase from Trichoderma longibrachiatum and a model phospholipid system.

  10. Tackiness of pressure-sensitive adhesives: An ultra-small-angle X-ray scattering investigation

    NASA Astrophysics Data System (ADS)

    Müller-Buschbaum, P.; Ittner, T.; Petry, W.

    2004-05-01

    The debonding of a model pressure-sensitive adhesive (PSA) poly-n-buthylacrylate is investigated by a combination of the mechanical tack test, optical microscopy and in situ ultra-small-angle X-ray scattering. From the mechanical test, macroscopic values such as force-distance curves are determined. The force-distance curve exhibits the typical non-linear behavior. With microscopy the macroscopic cavitation structure is observed. Scattering addresses the structure of the PSA on a microscopic level for the first time. As a new feature, a sub-structure of the usual optically resolvable macroscopic fibrils between the PSA surface and the probe punch is detected. The sub-structure exists over a large distance between the PSA and the probe surface and remains constant in diameter. This behavior of the sub-structure as well as the dependence of the force plateau on the film thickness are compared with theoretical predictions.

  11. Small angle x-ray scattering studies of carbon anodes used in lithium rechargeable batteries.

    SciTech Connect

    Sandi, G.; Carrado, K. A.; Winans, R. E.; Seifert, S.; Johnson, C. S.

    1999-11-16

    In ANL laboratories, disordered carbons with predictable surface area and porosity properties have been prepared using inorganic templates containing well defined pore sizes. The carbons have been tested in electrochemical cells as anodes in lithium secondary batteries. They deliver high specific capacity and display excellent performance in terms of the number of cycles run. In situ small angle X-ray scattering (SAXS) during electrochemical cycling was carried out at the Advanced Photon Source, at ANL. In order to monitor the carbon electrode structural changes upon cycling, an electrochemical cell was specially designed to allow for the application of electrical current and the collection of SAXS data at the same time. Results show that upon cycling the structure of the carbon remains unchanged, which is desirable in reversible systems.

  12. Small angle neutron and X-ray scattering studies of carbons prepared using inorganic templates

    SciTech Connect

    Sandi, G.; Thiyagarajan, P.; Winans, R.E.; Carrado, K.A.

    1997-09-01

    Small angle neutron (SANS) and X-ray (SAXS) scattering analyses of carbons derived from organic-loaded inorganic template materials, used as anodes in lithium ion cells, have been performed. Two clays were used as templates to load the organic precursors, pillared montmorrillonite (PILC), a layered silicate clay whose sheets have been permanently propped open by sets of thermally stable molecular props, and sepiolite, a natural channeled clay. Five different organic precursors were used to load the PILC: pyrene, styrene, pyrene/trioxane copolymer, ethylene and propylene, whereas only propylene and ethylene were used to load sepiolite. Pyrolysis took place at 700{degrees}C under nitrogen. Values such as hole radius, fractal dimension, cutoff length and density of the final carbons will be compared as a function of the clay and carbon precursors.

  13. The complete VS ribozyme in solution studied by small-angle X-ray scattering

    SciTech Connect

    Lipfert, Jan; Ouellet, Jonathan; Norman, David G.; Doniach, Sebastian; Lilley, David M.J.

    2008-10-06

    We have used small-angle X-ray solution scattering to obtain ab initio shape reconstructions of the complete VS ribozyme. The ribozyme occupies an electron density envelope with an irregular shape, into which helical sections have been fitted. The ribozyme is built around a core comprising a near-coaxial stack of three helices, organized by two three-way helical junctions. An additional three-way junction formed by an auxiliary helix directs the substrate stem-loop, juxtaposing the cleavage site with an internal loop to create the active complex. This is consistent with the current view of the probable mechanism of trans-esterification in which adenine and guanine nucleobases contributed by the interacting loops combine in general acid-base catalysis.

  14. Characterization of Nanocomposite filler Morphology using Ultra Small-Angle X-ray Scattering

    SciTech Connect

    Justice, Ryan S.; Schaefer, Dale W.

    2010-10-22

    Loading polymer matrices with nanoscale fillers is widely believed to have the potential to push polymer properties to extreme values. Realization of anticipated properties, however, has proven elusive. Recent nanocomposite research suggests better characterization of the large-scale morphology will provide insight explaining these shortfalls. This work will present ultra-small angle X-ray scattering as a viable tool for elucidating the hierarchical filler morphology that exists within polymer nanocomposites. Scattering analysis tools developed by our group will be applied to scattering data from nanocomposites filled with carbon nanotubes, layered silicates, and colloidal silica. The relationship between imaging data and scattering data will be discussed in the context of filler dispersion. Finally, the impact of large-scale filler morphology on mechanical and electrical properties will be discussed.

  15. The complete VS ribozyme in solution studied by small-angle X-ray scattering

    PubMed Central

    Lipfert, Jan; Ouellet, Jonathan; Norman, David G.; Doniach, Sebastian; Lilley, David M.J.

    2010-01-01

    SUMMARY We have used small-angle X-ray solution scattering to obtain ab initio shape reconstructions of the complete VS ribozyme. The ribozyme occupies an electron density envelope with an irregular shape, into which helical sections have been fitted. The ribozyme is built around a core comprising a near-coaxial stack of three helices, organized by two three-way helical junctions. An additional three-way junction formed by an auxiliary helix directs the substrate stem-loop, juxtaposing the cleavage site with an internal loop to create the active complex. This is consistent with the current view of the probable mechanism of transesterification in which adenine and guanine nucleobases contributed by the interacting loops combine together in general acid-base catalysis. PMID:18786398

  16. Probing coal reactivity by time-resolved small angle x-ray scattering.

    SciTech Connect

    Winans, R. E.

    1999-01-22

    The objective of this study is to observe changes in coal structure in situ with small angle X-ray scattering (SAXS) during solvent swelling and during pyrolysis. We have built a SAXS instrument at the Basic Energy Sciences Synchrotrons Research Center at the Advanced Photon Source that allows us to obtain scattering patterns in the millisecond time domain. The eight Argonne Premium Coal samples were used in this study. The information that can be derived from these experiments, such as changes in fractal dimensionality and in size and type of porosity, was found to be very rank-dependent. In the swelling experiments, it was noted that for certain coals, structural changes occurred in just a few minutes.

  17. Online ion-exchange chromatography for small-angle X-ray scattering

    PubMed Central

    Hutin, Stephanie; Brennich, Martha; Maillot, Benoit; Round, Adam

    2016-01-01

    Biological small-angle X-ray scattering (BioSAXS) is a powerful technique to determine the solution structure, particle size, shape and surface-to-volume ratio of macromolecules. However, a drawback is that the sample needs to be monodisperse. To ensure this, size-exclusion chromatography (SEC) has been implemented on many BioSAXS beamlines. Here, the integration of ion-exchange chromatography (IEC) using both continuous linear and step gradients on a beamline is described. Background subtraction for continuous gradients by shifting a reference measurement and two different approaches for step gradients, which are based on interpolating between two background measurements, are discussed. The results presented here serve as a proof of principle for online IEC and subsequent data treatment. PMID:27710930

  18. Structural and Thermodynamic Properties of Septin 3 Investigated by Small-Angle X-Ray Scattering

    PubMed Central

    Ortore, Maria Grazia; Macedo, Joci N.A.; Araujo, Ana Paula U.; Ferrero, Claudio; Mariani, Paolo; Spinozzi, Francesco; Itri, Rosangela

    2015-01-01

    Septins comprise a family of proteins involved in a variety of cellular processes and related to several human pathologies. They are constituted by three structural domains: the N- and C-terminal domains, highly variable in length and composition, and the central domain, involved in the guanine nucleotide (GTP) binding. Thirteen different human septins are known to form heterogeneous complexes or homofilaments, which are stabilized by specific interactions between the different interfaces present in the domains. In this work, we have investigated by in-solution small-angle x-ray scattering the structural and thermodynamic properties of a human septin 3 construct, SEPT3-GC, which contains both of both interfaces (G and NC) responsible for septin-septin interactions. In order to shed light on the role of these interactions, small-angle x-ray scattering measurements were performed in a wide range of temperatures, from 2 up to 56°C, both with and without a nonhydrolysable form of GTP (GTPγS). The acquired data show a temperature-dependent coexistence of monomers, dimers, and higher-order aggregates that were analyzed using a global fitting approach, taking into account the crystallographic structure of the recently reported SEPT3 dimer, PDB:3SOP. As a result, the enthalpy, entropy, and heat capacity variations that control the dimer-monomer dissociation equilibrium in solution were derived and GTPγS was detected to increase the enthalpic stability of the dimeric species. Moreover, a temperature increase was observed to induce dissociation of SEPT3-GC dimers into monomers just preceding their reassembling into amyloid aggregates, as revealed by the Thioflavin-T fluorescence assays. PMID:26083929

  19. Small-angle neutron and X-ray scattering reveal conformational changes in rhodopsin activation

    NASA Astrophysics Data System (ADS)

    Shrestha, Utsab R.; Bhowmik, Debsindhu; Perera, Suchitrhanga M. C. D.; Chawla, Udeep; Struts, Andrey V.; Graziono, Vito; Pingali, Sai Venkatesh; Heller, William T.; Qian, Shuo; Brown, Michael F.; Chu, Xiang-Qiang

    2015-03-01

    Understanding G-protein-coupled receptor (GPCR) activation plays a crucial role in the development of novel improved molecular drugs. During photo-activation, the retinal chromophore of the visual GPCR rhodopsin isomerizes from 11-cis to all-trans conformation, yielding an equilibrium between inactive Meta-I and active Meta-II states. The principal goals of this work are to address whether the activation of rhodopsin leads to a single state or a conformational ensemble, and how protein organizational structure changes with detergent environment in solution. We use both small-angle neutron scattering (SANS) and small-angle X-ray scattering (SAXS) techniques to answer the above questions. For the first time we observe the change in protein conformational ensemble upon photo-activation by SANS with contrast variation, which enables the separate study of the protein structure within the detergent assembly. In addition, SAXS study of protein structure within detergent assembly suggests that the detergent molecules form a belt of monolayer (micelle) around protein with different geometrical shapes to keep the protein in folded state.

  20. Density of hydrophobically confined deeply cooled water investigated by small angle X-ray scattering

    SciTech Connect

    Liu, Kao-Hsiang; Zhang, Yang; Jeng, U-Ser; Mou, Chung-Yuan

    2015-09-07

    Water’s behavior near hydrophobic surfaces has attracted great attention due to chemical and geological applications. Here, we report small angle X-ray scattering (SAXS) studies of water confined in the hydrophobic nanoporous carbon material, CMK-1-14, from ambient to deeply cooled temperatures. By monitoring the scattering intensity of the first Bragg peak, which is directly related to the scattering length density contrast between the carbon matrix and the confined water, the average density of the hydrophobically confined water was determined from 300 K to 150 K at ambient pressure. Furthermore, differential scanning calorimetry and X-ray diffraction measurements showed that the majority of such hydrophobically confined water did not crystallize in the investigated temperature range. By exploiting the fast speed of SAXS measurements and the continuous temperature ramping, the average density profile and the deduced thermal expansion coefficient (α{sub p}) were obtained. We found that the well-known density maximum of water at 277 K downshifted to 260 K, and the density minimum which has been observed in hydrophilic confinement disappeared. In addition, the previously measured large density decreasing of 18% at low temperature was recalibrated to a more reasonable 10% instead. Consequently, the recalculated α{sub p} peak was found to be quite similar to that of the water confined in hydrophilic MCM-41-S-15 suggesting an intrinsic property of water, which does not sensitively depend on the confinement surface.

  1. Synchrotron-based small-angle X-ray scattering (SAXS) of proteins in solution

    PubMed Central

    Skou, Soren; Gillilan, Richard E

    2015-01-01

    Summary With recent advances in data analysis algorithms, X-ray detectors, and synchrotron sources, small-angle X-ray scattering (SAXS) has become much more accessible to the structural biology community than ever before. Although limited to ~10 Å resolution, SAXS can provide a wealth of structural information on biomolecules in solution and is compatible with a wide range of experimental conditions. SAXS is thus an attractive alternative when crystallography is not possible. Moreover, advanced usage of SAXS can provide unique insight into biomolecular behavior that can only be observed in solution, such as large conformational changes and transient protein-protein interactions. Unlike crystal diffraction data, however, solution scattering data are subtle in appearance, highly sensitive to sample quality and experimental errors, and easily misinterpreted. In addition, synchrotron beamlines that are dedicated to SAXS are often unfamiliar to the non-specialist. Here, we present a series of procedures that can be used for SAXS data collection and basic cross-checks designed to detect and avoid aggregation, concentration effects, radiation damage, buffer mismatch, and other common problems. The protein, human serum albumin (HSA), serves as a convenient and easily replicated example of just how subtle these problems can sometimes be, but also of how proper technique can yield pristine data even in problematic cases. Because typical data collection times at a synchrotron are only one to several days, we recommend that the sample purity, homogeneity, and solubility be extensively optimized prior to the experiment. PMID:24967622

  2. Density of hydrophobically confined deeply cooled water investigated by small angle X-ray scattering

    SciTech Connect

    Liu, Kao-Hsiang; Zhang, Yang; Jeng, U-Ser; Mou, Chung-Yuan

    2015-09-07

    The behavior of water near hydrophobic surfaces has attracted great attention due to chemical and geological applications. Here, we report small angle X-ray scattering (SAXS) studies of water confined in the hydrophobic nanoporous carbon material, CMK-1-14, from ambient to deeply cooled temperatures. Moreover, by monitoring the scattering intensity of the first Bragg peak, which is directly related to the scattering length density contrast between the carbon matrix and the confined water, the average density of the hydrophobically confined water was determined from 300 K to 150 K at ambient pressure. Furthermore, differential scanning calorimetry and X-ray diffraction measurements showed that the majority of such hydrophobically confined water did not crystallize in the investigated temperature range. By exploiting the fast speed of SAXS measurements and the continuous temperature ramping, the average density profile and the deduced thermal expansion coefficient (alpha(p)) were obtained. We found that the well-known density maximum of water at 277 K downshifted to 260 K, and the density minimum which has been observed in hydrophilic confinement disappeared. Additionally, the previously measured large density decreasing of 18% at low temperature was recalibrated to a more reasonable 10% instead. Consequently, the recalculated ap peak was found to be quite similar to that of the water confined in hydrophilic MCM-41-S-15 suggesting an intrinsic property of water, which does not sensitively depend on the confinement surface.

  3. Density of hydrophobically confined deeply cooled water investigated by small angle X-ray scattering

    DOE PAGESBeta

    Liu, Kao-Hsiang; Zhang, Yang; Jeng, U-Ser; Mou, Chung-Yuan

    2015-09-07

    The behavior of water near hydrophobic surfaces has attracted great attention due to chemical and geological applications. Here, we report small angle X-ray scattering (SAXS) studies of water confined in the hydrophobic nanoporous carbon material, CMK-1-14, from ambient to deeply cooled temperatures. Moreover, by monitoring the scattering intensity of the first Bragg peak, which is directly related to the scattering length density contrast between the carbon matrix and the confined water, the average density of the hydrophobically confined water was determined from 300 K to 150 K at ambient pressure. Furthermore, differential scanning calorimetry and X-ray diffraction measurements showed thatmore » the majority of such hydrophobically confined water did not crystallize in the investigated temperature range. By exploiting the fast speed of SAXS measurements and the continuous temperature ramping, the average density profile and the deduced thermal expansion coefficient (alpha(p)) were obtained. We found that the well-known density maximum of water at 277 K downshifted to 260 K, and the density minimum which has been observed in hydrophilic confinement disappeared. Additionally, the previously measured large density decreasing of 18% at low temperature was recalibrated to a more reasonable 10% instead. Consequently, the recalculated ap peak was found to be quite similar to that of the water confined in hydrophilic MCM-41-S-15 suggesting an intrinsic property of water, which does not sensitively depend on the confinement surface.« less

  4. Improving small-angle X-ray scattering data for structural analyses of the RNA world

    PubMed Central

    Rambo, Robert P.; Tainer, John A.

    2010-01-01

    Defining the shape, conformation, or assembly state of an RNA in solution often requires multiple investigative tools ranging from nucleotide analog interference mapping to X-ray crystallography. A key addition to this toolbox is small-angle X-ray scattering (SAXS). SAXS provides direct structural information regarding the size, shape, and flexibility of the particle in solution and has proven powerful for analyses of RNA structures with minimal requirements for sample concentration and volumes. In principle, SAXS can provide reliable data on small and large RNA molecules. In practice, SAXS investigations of RNA samples can show inconsistencies that suggest limitations in the SAXS experimental analyses or problems with the samples. Here, we show through investigations on the SAM-I riboswitch, the Group I intron P4-P6 domain, 30S ribosomal subunit from Sulfolobus solfataricus (30S), brome mosaic virus tRNA-like structure (BMV TLS), Thermotoga maritima asd lysine riboswitch, the recombinant tRNAval, and yeast tRNAphe that many problems with SAXS experiments on RNA samples derive from heterogeneity of the folded RNA. Furthermore, we propose and test a general approach to reducing these sample limitations for accurate SAXS analyses of RNA. Together our method and results show that SAXS with synchrotron radiation has great potential to provide accurate RNA shapes, conformations, and assembly states in solution that inform RNA biological functions in fundamental ways. PMID:20106957

  5. Small-angle x-ray scattering studies of the manganese stabilizing subunit in photosystem II.

    SciTech Connect

    Svensson, B.; Tiede, D. M.; Barry, B. A.; Univ. of Minnesota

    2002-08-29

    Small-angle X-ray scattering studies (SAXS) were used to determine the size, shape, and oligomeric composition of the manganese stabilizing protein (MSP) of photosystem II. This extrinsic protein subunit plays an important role in photosynthetic oxygen evolution. As its name implies, MSP stabilizes the tetranuclear Mn cluster of the water oxidation complex. Removal of MSP lowers activity and decreases the stability of active-site manganese. Reconstitution of MSP reverses these effects. In this study, MSP was extracted from spinach PSII membranes using CaCl{sub 2} or urea. Through the use of MALDI-TOF mass spectrometry, the molecular weight of MSP was determined to be 26.53 kDa. X-ray scattering results show that both samples display a monodisperse scattering pattern; this pattern is consistent with a homogeneous protein solution. The CaCl{sub 2} extracted and urea extracted MSP samples have radii of gyration of 25.9 {+-} 0.4 and 27.0 {+-} 0.01 {angstrom}, respectively. MSP is shown to be monomeric in solution. This was determined using a cytochrome c standard and the scattering intensity, extrapolated to zero scattering angle, which is proportional to the molecular weight. This SAXS study suggests that, in solution, MSP is a monomeric, elongated prolate ellipsoid with dimensions, 112 x 23 x 23 {angstrom}{sup 3} and an axial ratio of 4.8.

  6. Alzheimer's disease imaging biomarkers using small-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Choi, Mina; Alam, Nadia; Dahal, Eshan; Ghammraoui, Bahaa; Badano, Aldo

    2016-03-01

    There is a need for novel imaging techniques for the earlier detection of Alzheimer's disease (AD). Two hallmarks of AD are amyloid beta (Aβ) plaques and tau tangles that are formed in the brain. Well-characterized x-ray cross sections of Aβ and tau proteins in a variety of structural states could potentially be used as AD biomarkers for small-angle x-ray scattering (SAXS) imaging without the need for injectable probes or contrast agents. First, however, the protein structures must be controlled and measured to determine accurate biomarkers for SAXS imaging. Here we report SAXS measurements of Aβ42 and tau352 in a 50% dimethyl sulfoxide (DMSO) solution in which these proteins are believed to remain monomeric because of the stabilizing interaction of DMSO solution. Our SAXS analysis showed the aggregation of both proteins. In particular, we found that the aggregation of Aβ42 slowly progresses with time in comparison to tau352 that aggregates at a faster rate and reaches a steady-state. Furthermore, the measured signals were compared to the theoretical SAXS profiles of Aβ42 monomer, Aβ42 fibril, and tau352 that were computed from their respective protein data bank structures. We have begun the work to systematically control the structural states of these proteins in vitro using various solvent conditions. Our future work is to utilize the distinct SAXS profiles of various structural states of Aβ and tau to build a library of signals of interest for SAXS imaging in brain tissue.

  7. Discovering New Features of Protein Complexes Structures by Small-Angle X-Ray Scattering

    NASA Astrophysics Data System (ADS)

    Oliveira, C. L. P.; Vorup-Jensen, T.; Andersen, C. B. F.; Andersen, G. R.; Pedersen, J. S.

    In spite of the recent advances in the X-Ray crystallography and nuclear magnetic resonance techniques, the determination of the quaternary structure of large protein complexes is still a challenge in molecular biology and biological sciences. In this respect, small-angle X-ray scattering (SAXS) is a key technique, enabling the determination of the possible structural conformation of complexes in an almost native state. Despite of this book being devoted to scattering techniques by synchrotron radiation, in this chapter we present two examples of application of laboratory-based SAXS to protein solution. The fundaments of the technique are obviously the same and have been deeply described in Chap. 2. In this chapter, we will introduce the application of SAXS to protein solution. Special emphasis is done on data reduction and absolute units calibration. As an example to illustrate the power of this technique, two new data sets for two protein complexes will be presented. This will show how high-quality SAXS data combined with advanced model strategies enables the determination of the quaternary structure of protein complexes.

  8. Small-angle x-ray scattering study of crazing in bulk thermoplastic polymers

    NASA Astrophysics Data System (ADS)

    Salomons, Gregory John

    Crazing is a form of tension-induced deformation consisting of microscopic cracks spanned by load-bearing fibrils. This is generally considered to be the primary source of plastic strain response of rubber-modified thermoplastics subjected to applied tensile stress. An understanding of the mechanisms involved in crazing is, therefore, valuable as a means of identifying structure-property relationships. Extensive studies on single crazes in thin films have been done,sp{1-6} however, experiments on crazing in bulk materials have been fraught with problems, such as difficulties with the production of uniform crazes and accurate temperature control.sp7 A new apparatus has been designed to overcome many of these problems; a symmetric tensile stretching mechanism and a radiant heating technique combined with real-time small-angle x-ray scattering (RTSAXS) is used to examine craze fibril structure. The analysis of small-angle x-ray scattering (SAXS) data is highly model-dependent requiring precise structural models to ensure accurate interpretation. Recently, improved measurement techniques have called into question some aspects of the long accepted models applied to SAXS interpretation of craze structures.sp{8,9} A detailed examination of the models applicable to craze fibril structure is presented here, including a newly proposed model involving power-law density distributions within the fibrils. It is shown that the best description of craze fibrils comes from a Gaussian density distribution. This is in contrast to the traditional models which describe the fibrils as having uniform density with sharp boundaries.sp{1,2} RTSAXS studies of High Impact Polystyrene (HIPS) and Polystyrene (PS) blended with 2 wt.% Polybutadiene (PB) were performed using a constant strain rate of 5 × 10sp{-4} ssp{-1} and temperatures from 30 to 70sp°C. Crazing deformation modes were identified and the macroscopic deformation characteristics for the two materials were compared revealing a

  9. Nano-Scale Morphology of Melanosomes Revealed by Small-Angle X-Ray Scattering

    PubMed Central

    Gorniak, Thomas; Haraszti, Tamas; Garamus, Vasyl M.; Buck, Andreas R.; Senkbeil, Tobias; Priebe, Marius; Hedberg-Buenz, Adam; Koehn, Demelza; Salditt, Tim; Grunze, Michael; Anderson, Michael G.; Rosenhahn, Axel

    2014-01-01

    Melanosomes are highly specialized organelles that produce and store the pigment melanin, thereby fulfilling essential functions within their host organism. Besides having obvious cosmetic consequences – determining the color of skin, hair and the iris – they contribute to photochemical protection from ultraviolet radiation, as well as to vision (by defining how much light enters the eye). Though melanosomes can be beneficial for health, abnormalities in their structure can lead to adverse effects. Knowledge of their ultrastructure will be crucial to gaining insight into the mechanisms that ultimately lead to melanosome-related diseases. However, due to their small size and electron-dense content, physiologically intact melanosomes are recalcitrant to study by common imaging techniques such as light and transmission electron microscopy. In contrast, X-ray-based methodologies offer both high spatial resolution and powerful penetrating capabilities, and thus are well suited to study the ultrastructure of electron-dense organelles in their natural, hydrated form. Here, we report on the application of small-angle X-ray scattering – a method effective in determining the three-dimensional structures of biomolecules – to whole, hydrated murine melanosomes. The use of complementary information from the scattering signal of a large ensemble of suspended organelles and from single, vitrified specimens revealed a melanosomal sub-structure whose surface and bulk properties differ in two commonly used inbred strains of laboratory mice. Whereas melanosomes in C57BL/6J mice have a well-defined surface and are densely packed with 40-nm units, their counterparts in DBA/2J mice feature a rough surface, are more granular and consist of 60-nm building blocks. The fact that these strains have different coat colors and distinct susceptibilities to pigment-related eye disease suggest that these differences in size and packing are of biological significance. PMID:24621581

  10. A triple axis double crystal multiple reflection camera for ultra small angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Lambard, Jacques; Lesieur, Pierre; Zemb, Thomas

    1992-06-01

    To extend the domain of small angle X-ray scattering requires multiple reflection crystals to collimate the beam. A double crystal, triple axis X-ray camera using multiple reflection channel cut crystals is described. Procedures for measuring the desmeared scattering cross-section on absolute scale are described as well as the measurement from several typical samples : fibrils of collagen, 0.3 μm diameter silica spheres, 0.16 μm diameter interacting latex spheres, porous lignite coal, liquid crystals in a surfactant-water system, colloidal crystal of 0.32 μm diameter silica spheres. L'extension du domaine de diffusion des rayons-X vers les petits angles demande l'emploi de cristaux à réflexions multiples pour collimater le faisceau. Nous décrivons une caméra à rayons-X à trois axes où les réflexions multiples sont réalisées dans deux cristaux à gorge. Nous donnons ensuite les procédures de déconvolution pour obtenir la section efficace de diffusion en échelle absolue, ainsi que les résultats des mesures effectuées avec plusieurs échantillons typiques : fibres de collagène, sphères de silice de 0,3 μm de diamètre, sphères de latex de 0,16 μm de diamètre en interaction, charbon lignite poreux, cristaux liquides formés dans un système eau-tensioactif, solution colloïdale de sphères de silice de 0,32 μm de diamètre.

  11. Signal, noise, and resolution in correlated fluctuations from snapshot small-angle x-ray scattering

    SciTech Connect

    Kirian, Richard A.; Schmidt, Kevin E.; Wang Xiaoyu; Doak, R. Bruce; Spence, John C. H.

    2011-07-15

    It has been suggested that the three-dimensional structure of one particle may be reconstructed using the scattering from many identical, randomly oriented copies ab initio, without modeling or a priori information. This may be possible if these particles are frozen in either space or time, so that the conventional two-dimensional small-angle x-ray scattering (SAXS) distribution contains fluctuations and is no longer isotropic. We consider the magnitude of the correlated fluctuation SAXS (CFSAXS) signal for typical x-ray free-electron laser (XFEL) beam conditions and compare this against the errors derived with the inclusion of Poisson photon counting statistics. The resulting signal-to-noise ratio (SNR) is found to rapidly approach a limit independent of the number of particles contributing to each diffraction pattern, so that the addition of more particles to a ''single-particle-per-shot'' experiment may be of little value, apart from reducing solvent background. When the scattering power is significantly less than one photon per particle per Shannon pixel, the SNR grows in proportion to incident flux. We provide simulations for protein molecules in support of these analytical results, and discuss the effects of solvent background scatter. We consider the SNR dependence on resolution and particle size, and discuss the application of the method to glasses and liquids, and the implications of more powerful XFELs, smaller focused beams, and higher pulse repetition rates for this approach. We find that an accurate CFSAXS measurement may be acquired to subnanometer resolution for protein molecules if a 9-keV beam containing 10{sup 13} photons is focused to a {approx}100-nm spot diameter, provided that the effects of solvent background can be reduced sufficiently.

  12. Metastable ripple phase of fully hydrated dipalmitoylphosphatidylcholine as studied by small angle x-ray scattering

    PubMed Central

    Yao, Haruhiko; Matuoka, Sinzi; Tenchov, Boris; Hatta, Ichiro

    1991-01-01

    Fully hydrated dipalmitoylphosphatidylcholine (DPPC) undergoes liquid crystalline to metastable Pβ, phase transition in cooling. A small angle x-ray scattering study has been performed for obtaining further evidence about the structure of this phase. From a high-resolution observation of x-ray diffraction profiles, a distinct multipeak pattern has become obvious. Among them the (01) reflection in the secondary ripple structure is identified clearly. There are peaks assigned straightforwardly to (10) and (20) reflections in the primary ripple structure and peaks assigned to (10) and (20) reflections in the secondary ripple structure. Therefore the multipeak pattern is due to superposition of the reflections cause by the primary and secondary ripple structures. The lattice parameters are estimated as follows: for the primary ripple structure a = 7.09 nm, b = 13.64 nm, and γ = 95°, and for the secondary ripple structure a = 8.2 nm, b = 26.6 nm, and γ = 90°. The lattice parameters thus obtained for the secondary ripple structure are not conclusive, however. The hydrocarbon chains in the primary ripple structure have been reported as being tilted against the bilayer plane and, on the other hand, the hydrocarbon chains in the secondary ripple structure are likely to be perpendicular to the bilayer plane. This fact seems to be related to a sequential mechanism of phase transitions. On heating from the Lβ, phase where the hydrocarbon chains are tilted the primary ripple structure having tilted hydrocarbon chains takes place and on cooling from the Lα phase where the hydrocarbon chains are not tilted the secondary ripple structure with untilted chains tends to be stabilized. It appears that the truly metastable ripple phase is expressed by the second ripple structure although in the course of the actual cooling transition both the secondary and primary ripple structures form and coexist. PMID:19431787

  13. Recent improvements in small angle x-ray diffraction for the study of muscle physiology

    NASA Astrophysics Data System (ADS)

    Reconditi, Massimo

    2006-10-01

    The molecular mechanism of muscle contraction is one of the most important unresolved problems in biology and biophysics. Notwithstanding the great advances of recent years, it is not yet known in detail how the molecular motor in muscle, the class II myosin, converts the free energy of ATP hydrolysis into work by interacting with its track, the actin filament; neither is it understood how the high efficiency in energy conversion depends on the cooperative action of myosin motors working in parallel along the actin filament. Research in muscle contraction involves the combination of mechanical, biochemical and structural methods in studies that span from tissue to single molecule. Therefore, more than for any other research field, progress in the comprehension of muscle contraction at the molecular level is related to, and in turn contributes to, the advancement of methods in biophysics. This review will focus on the progress achieved by time-resolved small angle x-ray scattering (SAXS) from muscle, an approach made possible by the highly ordered arrangement of both the contractile proteins myosin and actin in the ca 2 µm long structural unit, the sarcomere, that repeats along the whole length of the muscle cell. Among time-resolved structural techniques, SAXS has proved to be the most powerful method of investigation, as it allows the molecular motor to be studied in situ, in intact single muscle cells, where it is possible to combine the structural study with fast mechanical methods that synchronize the action of the molecular motors. The latest development of this technique allows Angstrom-scale measurements of the axial movement of the motors that pull the actin filament towards the centre of the sarcomere, by exploiting the x-ray interference between the two arrays of myosin motors in the two halves of the sarcomere.

  14. Collagen Orientation and Crystallite Size in Human Dentin: A Small Angle X-ray Scattering Study

    SciTech Connect

    Pople, John A.

    2001-03-29

    The mechanical properties of dentin are largely determined by the intertubular dentin matrix, which is a complex composite of type I collagen fibers and a carbonate-rich apatite mineral phase. The authors perform a small angle x-ray scattering (SAXS) study on fully mineralized human dentin to quantify this fiber/mineral composite architecture from the nanoscopic through continuum length scales. The SAXS results were consistent with nucleation and growth of the apatite phase within periodic gaps in the collagen fibers. These mineralized fibers were perpendicular to the dentinal tubules and parallel with the mineralization growth front. Within the plane of the mineralization front, the mineralized collagen fibers were isotropic near the pulp, but became mildly anisotropic in the mid-dentin. Analysis of the data also indicated that near the pulp the mineral crystallites were approximately needle-like, and progressed to a more plate-like shape near the dentino-enamel junction. The thickness of these crystallites, {approx} 5 nm, did not vary significantly with position in the tooth. These results were considered within the context of dentinogenesis and maturation.

  15. Structural modeling of proteins by integrating small-angle x-ray scattering data

    NASA Astrophysics Data System (ADS)

    Zhang, Yong-Hui; Peng, Jun-Hui; Zhang, Zhi-Yong

    2015-12-01

    Elucidating the structure of large biomolecules such as multi-domain proteins or protein complexes is challenging due to their high flexibility in solution. Recently, an “integrative structural biology” approach has been proposed, which aims to determine the protein structure and characterize protein flexibility by combining complementary high- and low-resolution experimental data using computer simulations. Small-angle x-ray scattering (SAXS) is an efficient technique that can yield low-resolution structural information, including protein size and shape. Here, we review computational methods that integrate SAXS with other experimental datasets for structural modeling. Finally, we provide a case study of determination of the structure of a protein complex formed between the tandem SH3 domains in c-Cb1-associated protein and the proline-rich loop in human vinculin. Project supported by the National Key Basic Research Program of China (Grant Nos. 2013CB910203 and 2011CB911104), the National Natural Science Foundation of China (Grant No. 31270760), the Strategic Priority Research Program of the Chinese Academy of Sciences (Grant No. XDB08030102), and the Specialized Research Fund for the Doctoral Program of Higher Education of China (Grant No. 20113402120013).

  16. Structural Studies of Bleached Melanin by Synchrotron Small-angle X-ray Scattering¶

    SciTech Connect

    Littrell, Kenneth C.; Gallas, James M.; Zajac, Gerry W.; Thiyagarajan, Pappannan

    2003-01-01

    Small-angle X-ray scattering was used to measure the effects of chemical bleaching on the size and morphology of tyrosine-derived synthetic melanin dispersed in aqueous media. The average size as measured by the radius of gyration of the melanin particles in solution, at neutral to mildly basic pH, decreases from 16.5 to 12.5 angstroms with increased bleaching. The melanin particles exhibit scattering characteristic of sheet-like structures with a thickness of approximately 11 angstroms at all but the highest levels of bleaching. The scattering data are well described by the form factor for scattering from a pancake-like circular cylinder. These data are consistent with the hypothesis that unbleached melanin, at neutral to mildly basic pH, is a planar aggregate of 6- to 10-nm-sized melanin protomolecules, hydrogen bonded through their quinone and phenolic perimeters. The observed decrease in melanin particle size with increased bleaching is interpreted as evidence for deaggregation, most probably the result of oxidative disruption of hydrogen bonds and an increase in the number of charged, carboxylic acid groups, whereby the melanin aggregates disassociate into units composed of decreasing numbers of protomolecules.

  17. Location of two antioxidants in oriented model membranes. Small-angle x-ray diffraction study.

    PubMed Central

    Katsaras, J; Stinson, R H; Davis, J H; Kendall, E J

    1991-01-01

    Small-angle x-ray diffraction has been applied in locating either butylated hydroxytoluene (BHT) or delta-tocopherol and their brominated analogues at a concentration of 40 mol% in oriented bilayers of dipalmitoylphosphatidylcholine (DPPC) or DPPC + 15 mol% cholesterol at 20 degrees C. Phases were determined using swelling experiments with structure factors plotted in reciprocal space, creating a relatively smooth curve as the amount of water between the bilayers was changed. Continuous Fourier transforms were also calculated using sampling theory (Shannon, C. E. 1949. Proc. Inst. Radio Engrs. NY. 37:10-21) to further test the consistency of the phase assignments. Fourier synthesis of structure factors resulted in absolute electron density profiles for different bilayers to a resolution of 5-6 A. In addition, difference Patterson maps were constructed to confirm the positions of the bromine atoms in the unit cell. Analysis of the data indicates the following: (a) The BHT molecules are dispersed throughout the alkyl-chain region in DPPC samples with and without cholesterol. (b) The chromanol ring of delta-tocopherol is in the vicinity of the glycerol backbone-headgroup region in samples of DPPC or DPPC + 15 mol% cholesterol. (c) Difference Patterson maps confirm the localization of bromine atoms in the various delta-tocopherol samples and lack of bromine localization in the various BHT samples. PMID:2049525

  18. Scanning of Adsorption Hysteresis In Situ with Small Angle X-Ray Scattering

    PubMed Central

    Mitropoulos, Athanasios Ch.; Favvas, Evangelos P.; Stefanopoulos, Konstantinos L.; Vansant, Etienne F.

    2016-01-01

    Everett’s theorem-6 of the domain theory was examined by conducting adsorption in situ with small angle x-ray scattering (SAXS) supplemented by the contrast matching technique. The study focuses on the spectrum differences of a point to which the system arrives from different scanning paths. It is noted that according to this theorem at a common point the system has similar macroscopic properties. Furthermore it was examined the memory string of the system. We concluded that opposite to theorem-6: a) at a common point the system can reach in a finite (not an infinite) number of ways, b) a correction for the thickness of the adsorbed film prior to capillary condensation is necessary, and c) the scattering curves although at high-Q values coincide, at low-Q values are different indicating different microscopic states. That is, at a common point the system holds different metastable states sustained by hysteresis effects. These metastable states are the ones which highlight the way of a system back to a return point memory (RPM). Entering the hysteresis loop from different RPMs different histories are implanted to the paths toward the common point. Although in general the memory points refer to relaxation phenomena, they also constitute a characteristic feature of capillary condensation. Analogies of the no-passing rule and the adiabaticity assumption in the frame of adsorption hysteresis are discussed. PMID:27741263

  19. Six-dimensional real and reciprocal space small-angle X-ray scattering tomography.

    PubMed

    Schaff, Florian; Bech, Martin; Zaslansky, Paul; Jud, Christoph; Liebi, Marianne; Guizar-Sicairos, Manuel; Pfeiffer, Franz

    2015-11-19

    When used in combination with raster scanning, small-angle X-ray scattering (SAXS) has proven to be a valuable imaging technique of the nanoscale, for example of bone, teeth and brain matter. Although two-dimensional projection imaging has been used to characterize various materials successfully, its three-dimensional extension, SAXS computed tomography, poses substantial challenges, which have yet to be overcome. Previous work using SAXS computed tomography was unable to preserve oriented SAXS signals during reconstruction. Here we present a solution to this problem and obtain a complete SAXS computed tomography, which preserves oriented scattering information. By introducing virtual tomography axes, we take advantage of the two-dimensional SAXS information recorded on an area detector and use it to reconstruct the full three-dimensional scattering distribution in reciprocal space for each voxel of the three-dimensional object in real space. The presented method could be of interest for a combined six-dimensional real and reciprocal space characterization of mesoscopic materials with hierarchically structured features with length scales ranging from a few nanometres to a few millimetres--for example, biomaterials such as bone or teeth, or functional materials such as fuel-cell or battery components.

  20. Characterization of Physically and Chemically Separated Athabasca Asphaltenes Using Small-Angle X-ray Scattering

    SciTech Connect

    Amundaraín Hurtado, Jesús Leonardo; Chodakowski, Martin; Long, Bingwen; Shaw, John M.

    2012-02-07

    Athabasca asphaltenes were characterized using small-angle X-ray scattering (SAXS). Two methods were used to separate asphaltenes from the Athabasca bitumen: namely, chemical separation by precipitation with n-pentane and physical separation by nanofiltration using a zirconia membrane with a 20 nm average pore size. The permeate and chemically separated samples were diluted in 1-methylnaphtalene and n-dodecane prior to SAXS measurements. The temperature and asphaltene concentration ranges were 50-310 C and 1-10.4 wt %, respectively. Model-independent analysis of SAXS data provided the radius of gyration and the scattering coefficients. Model-dependent fits provided size distributions for asphaltenes assuming that they are dense and spherical. Model-independent analysis for physically and chemically separated asphaltenes showed significant differences in nominal size and structure, and the temperature dependence of structural properties. The results challenge the merits of using chemically separated asphaltene properties as a basis for asphaltene property prediction in hydrocarbon resources. While the residuals for model-dependent fits are small, the results are inconsistent with the structural parameters obtained from model-independent analysis.

  1. Six-dimensional real and reciprocal space small-angle X-ray scattering tomography

    NASA Astrophysics Data System (ADS)

    Schaff, Florian; Bech, Martin; Zaslansky, Paul; Jud, Christoph; Liebi, Marianne; Guizar-Sicairos, Manuel; Pfeiffer, Franz

    2015-11-01

    When used in combination with raster scanning, small-angle X-ray scattering (SAXS) has proven to be a valuable imaging technique of the nanoscale, for example of bone, teeth and brain matter. Although two-dimensional projection imaging has been used to characterize various materials successfully, its three-dimensional extension, SAXS computed tomography, poses substantial challenges, which have yet to be overcome. Previous work using SAXS computed tomography was unable to preserve oriented SAXS signals during reconstruction. Here we present a solution to this problem and obtain a complete SAXS computed tomography, which preserves oriented scattering information. By introducing virtual tomography axes, we take advantage of the two-dimensional SAXS information recorded on an area detector and use it to reconstruct the full three-dimensional scattering distribution in reciprocal space for each voxel of the three-dimensional object in real space. The presented method could be of interest for a combined six-dimensional real and reciprocal space characterization of mesoscopic materials with hierarchically structured features with length scales ranging from a few nanometres to a few millimetres—for example, biomaterials such as bone or teeth, or functional materials such as fuel-cell or battery components.

  2. Automated acquisition and analysis of small angle X-ray scattering data

    NASA Astrophysics Data System (ADS)

    Franke, Daniel; Kikhney, Alexey G.; Svergun, Dmitri I.

    2012-10-01

    Small Angle X-ray Scattering (SAXS) is a powerful tool in the study of biological macromolecules providing information about the shape, conformation, assembly and folding states in solution. Recent advances in robotic fluid handling make it possible to perform automated high throughput experiments including fast screening of solution conditions, measurement of structural responses to ligand binding, changes in temperature or chemical modifications. Here, an approach to full automation of SAXS data acquisition and data analysis is presented, which advances automated experiments to the level of a routine tool suitable for large scale structural studies. The approach links automated sample loading, primary data reduction and further processing, facilitating queuing of multiple samples for subsequent measurement and analysis and providing means of remote experiment control. The system was implemented and comprehensively tested in user operation at the BioSAXS beamlines X33 and P12 of EMBL at the DORIS and PETRA storage rings of DESY, Hamburg, respectively, but is also easily applicable to other SAXS stations due to its modular design.

  3. Dynamic Conformations of Nucleosome Arrays in Solution from Small-Angle X-ray Scattering

    NASA Astrophysics Data System (ADS)

    Howell, Steven C.

    Chromatin conformation and dynamics remains unsolved despite the critical role of the chromatin in fundamental genetic functions such as transcription, replication, and repair. At the molecular level, chromatin can be viewed as a linear array of nucleosomes, each consisting of 147 base pairs (bp) of double-stranded DNA (dsDNA) wrapped around a protein core and connected by 10 to 90 bp of linker dsDNA. Using small-angle X-ray scattering (SAXS), we investigated how the conformations of model nucleosome arrays in solution are modulated by ionic condition as well as the effect of linker histone proteins. To facilitate ensemble modeling of these SAXS measurements, we developed a simulation method that treats coarse-grained DNA as a Markov chain, then explores possible DNA conformations using Metropolis Monte Carlo (MC) sampling. This algorithm extends the functionality of SASSIE, a program used to model intrinsically disordered biological molecules, adding to the previous methods for simulating protein, carbohydrates, and single-stranded DNA. Our SAXS measurements of various nucleosome arrays together with the MC generated models provide valuable solution structure information identifying specific differences from the structure of crystallized arrays.

  4. Structure of Nanoporous Biocarbon for Hydrogen Storage as Determined by Small Angle X-Ray Scattering

    NASA Astrophysics Data System (ADS)

    Wood, Mikael; Burress, J.; Pobst, J.; Carter, S.; Pfeifer, P.; Wexler, C.; Shah, P.; Suppes, G.

    2008-03-01

    As a member of the Alliance for Collaborative Research in Alternative Fuel Technology (ALL-CRAFT) our research group studies the properties of nanoporous biocarbon, produced from waste corn cob, with the goal of achieving the Department of Energy's gravimetric and volumetric standards for both hydrogen and methane gas storage. Small Angle X-Ray Scattering (SAXS) is a valuable tool in our investigation of the geometry of the pore space in our carbon samples. In this talk, we will compare the experimental SAXS data with theoretical results for various pore geometries to determine which pore models are consistent with experiment. Using data from nitrogen adsorption isotherms, along with SAXS, yields significant structural information about the pore space. This analysis should allow us to fully optimize our production process and to achieve the DOE's target storage capacities. This work supported by: 1. National Science Foundation (PFI-0438469) 2. U.S. Department of Education (P200A040038) 3. U.S. Department of Energy (DE-AC02-06CH11357) 4. University of Missouri (RB-06-040) 5. U.S. Department of Defense (N00164-07-P-1306) 6. U.S. Department of Energy (DE-FG02-07ER46411)

  5. Small-angle x-ray scattering/diffraction system for studies of biological and other materials at the Stanford Synchrotron Radiation Laboratorya)

    NASA Astrophysics Data System (ADS)

    Wakatsuki, S.; Hodgson, K. O.; Eliezer, D.; Rice, M.; Hubbard, S.; Gillis, N.; Doniach, S.; Spann, U.

    1992-02-01

    A versatile small-angle x-ray diffraction/scattering system has been developed at Stanford Synchrotron Radiation Laboratory for studies of biological and other materials. The system includes two sets of collimation slits separated by an ionization chamber, a sample holder cooled by a circulation bath, a vacuum/He scattering path after the sample holder and a detector, either a linear one-dimensional position-sensitive proportional counter or a position-sensitive quadrant detector. Data aquisition is controlled by a VAXstation through a CAMAC interface. Menu-driven data acquisition and on-line analysis software has been developed. The system can be used to collect small- to intermediate-angle x-ray scattering and diffraction data. Monochromatic, anomalous, and time-resolved scattering/diffraction experiments are possible. A time-resolved spectrophotometer using photodiode arrays has also been developed for simultaneous measurements of optical absorption spectra and x-ray scattering/diffraction.

  6. Small-angle x-ray scattering/diffraction system for studies of biological and other materials at the Stanford Synchrotron Radiation Laboratory (abstract)a)

    NASA Astrophysics Data System (ADS)

    Wakatsuki, S.; Hodgson, K. O.; Eliezer, D.; Rice, M.; Hubbard, S.; Gillis, N.; Doniach, S.; Spann, U.

    1992-01-01

    A versatile small-angle x-ray diffraction/scattering system has been developed at Stanford Synchrotron Radiation Laboratory for studies of biological and other materials. The system includes two sets of collimation slits separated by an ionization chamber, a sample holder cooled by a circulation bath, a vacuum/He scattering path after the sample holder and a detector, either a linear one-dimensional position-sensitive proportional counter or a position-sensitive quadrant detector. Data aquisition is controlled by a VAXstation through a CAMAC interface. Menu-driven data acquisition and on-line analysis software has been developed. The system can be used to collect small- to intermediate-angle x-ray scattering and diffraction data. Monochromatic, anomalous, and time-resolved diffraction/scattering experiments are possible. A time-resolved spectrophotometer using photodiode arrays has also been developed for simultaneous measurements of optical absorption spectra and x-ray scattering/diffraction.

  7. Small-Angle X-ray Study of the Three-Dimensional Collagen/Mineral Superstructure in Intramuscular Fish Bone

    SciTech Connect

    Zhou,H.; Burger, C.; Sics, I.; Hsiao, B.; Chu, B.; Graham, L.; Glimcher, M.

    2007-01-01

    Synchrotron small-angle X-ray scattering (SAXS) was conducted on native intramuscular shad/herring bone samples. Two-dimensional SAXS patterns were quantitatively analyzed with special consideration for preferred orientation effects, leading to new insights into the three-dimensional superstructure of mineralized collagen fibrils in shad/herring bone.

  8. Studies of protein structure in solution and protein folding using synchrotron small-angle x-ray scattering

    SciTech Connect

    Chen, Lingling

    1996-04-01

    Synchrotron small angle x-ray scattering (SAXS) has been applied to the structural study of several biological systems, including the nitrogenase complex, the heat shock cognate protein (hsc70), and lysozyme folding. The structural information revealed from the SAXS experiments is complementary to information obtained by other physical and biochemical methods, and adds to our knowledge and understanding of these systems.

  9. Size And Shape of Detergent Micelles Determined By Small-Angle X-Ray Scattering

    SciTech Connect

    Lipfert, Jan; Columbus, Linda; Chu, Vincent B.; Lesley, Scott A.; Doniach, Sebastian; /Stanford U., Phys. Dept. /Stanford U., Appl. Phys. Dept. /SLAC, SSRL /Pasteur Inst., Paris /Scripps Res. Inst. /Novartis Res. Found.

    2009-04-29

    We present a systematic analysis of the aggregation number and shape of micelles formed by nine detergents commonly used in the study of membrane proteins. Small-angle X-ray scattering measurements are reported for glucosides with 8 and 9 alkyl carbons (OG/NG), maltosides and phosphocholines with 10 and 12 alkyl carbons (DM/DDM and FC-10/FC-12), 1,2-dihexanoyl-sn-glycero-phosphocholine (DHPC), 1-palmitoyl-2-hydroxy-sn-glycero-3-[phospho-rac-(1-glycerol)] (LPPG), and 3-[(3-cholamidopropyl)dimethylammonio]-1-propane sulfonate (CHAPS). The SAXS intensities are well described by two-component ellipsoid models, with a dense outer shell corresponding to the detergent head groups and a less electron dense hydrophobic core. These models provide an intermediate resolution view of micelle size and shape. In addition, we show that Guinier analysis of the forward scattering intensity can be used to obtain an independent and model-free measurement of the micelle aggregation number and radius of gyration. This approach has the advantage of being easily generalizable to protein-detergent complexes, where simple geometric models are inapplicable. Furthermore, we have discovered that the position of the second maximum in the scattering intensity provides a direct measurement of the characteristic head group-head group spacing across the micelle core. Our results for the micellar aggregation numbers and dimensions agree favorably with literature values as far as they are available. We de novo determine the shape of FC-10, FC-12, DM, LPPG, and CHAPS micelles and the aggregation numbers of FC-10 and OG to be ca. 50 and 250, respectively. Combined, these data provide a comprehensive view of the determinants of micelle formation and serve as a starting point to correlate detergent properties with detergent-protein interactions.

  10. Structural characterization of the human cerebral myelin sheath by small angle x-ray scattering.

    PubMed

    De Felici, M; Felici, R; Ferrero, C; Tartari, A; Gambaccini, M; Finet, S

    2008-10-21

    Myelin is a multi-lamellar membrane surrounding neuronal axons and increasing their conduction velocity. When investigated by small-angle x-ray scattering (SAXS), the lamellar quasi-periodical arrangement of the myelin sheath gives rise to distinct peaks, which allow the determination of its molecular organization and the dimensions of its substructures. In this study we report on the myelin sheath structural determination carried out on a set of human brain tissue samples coming from surgical biopsies of two patients: a man around 60 and a woman nearly 90 years old. The samples were extracted either from white or grey cerebral matter and did not undergo any manipulation or chemical-physical treatment, which could possibly have altered their structure, except dipping them into a formalin solution for their conservation. Analysis of the scattered intensity from white matter of intact human cerebral tissue allowed the evaluation not only of the myelin sheath periodicity but also of its electronic charge density profile. In particular, the thicknesses of the cytoplasm and extracellular regions were established, as well as those of the hydrophilic polar heads and hydrophobic tails of the lipid bilayer. SAXS patterns were measured at several locations on each sample in order to establish the statistical variations of the structural parameters within a single sample and among different samples. This work demonstrates that a detailed structural analysis of the myelin sheath can also be carried out in randomly oriented samples of intact human white matter, which is of importance for studying the aetiology and evolution of the central nervous system pathologies inducing myelin degeneration. PMID:18812651

  11. Structural characterization of the human cerebral myelin sheath by small angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    DeFelici, M.; Felici, R.; Ferrero, C.; Tartari, A.; Gambaccini, M.; Finet, S.

    2008-10-01

    Myelin is a multi-lamellar membrane surrounding neuronal axons and increasing their conduction velocity. When investigated by small-angle x-ray scattering (SAXS), the lamellar quasi-periodical arrangement of the myelin sheath gives rise to distinct peaks, which allow the determination of its molecular organization and the dimensions of its substructures. In this study we report on the myelin sheath structural determination carried out on a set of human brain tissue samples coming from surgical biopsies of two patients: a man around 60 and a woman nearly 90 years old. The samples were extracted either from white or grey cerebral matter and did not undergo any manipulation or chemical-physical treatment, which could possibly have altered their structure, except dipping them into a formalin solution for their conservation. Analysis of the scattered intensity from white matter of intact human cerebral tissue allowed the evaluation not only of the myelin sheath periodicity but also of its electronic charge density profile. In particular, the thicknesses of the cytoplasm and extracellular regions were established, as well as those of the hydrophilic polar heads and hydrophobic tails of the lipid bilayer. SAXS patterns were measured at several locations on each sample in order to establish the statistical variations of the structural parameters within a single sample and among different samples. This work demonstrates that a detailed structural analysis of the myelin sheath can also be carried out in randomly oriented samples of intact human white matter, which is of importance for studying the aetiology and evolution of the central nervous system pathologies inducing myelin degeneration.

  12. Ultra small angle x-ray scattering in complex mixtures of triacylglycerols

    NASA Astrophysics Data System (ADS)

    Peyronel, Fernanda; Quinn, Bonnie; Marangoni, Alejandro G.; Pink, David A.

    2014-11-01

    Ultra-small angle x-ray scattering (USAXS) has been used to elucidate, in situ, the aggregation structure of unsheared model edible oils. Each system comprised one or two solid lipids and a combination of liquid lipids. The 3D nano- to micro-structures of each system were characterized. The length scale investigated, using the Bonse-Hart camera at beamline ID-15D at the Advanced Photon Source, ANL, ranged from 300 Å-10 µm. Using the Unified Fit model, level-1 analysis showed that the scatterers were 2D objects with either a smooth, a rough, or a diffuse surface. These 2D objects had an average radius of gyration Rg1 between 200-1500 Å. Level-2 analysis displayed a slope between -1 and -2. Use of the Guinier-Porod model gave s ≈ 1 thus showing that it was cylinders (TAGwoods) aggregating with fractal dimension 1 ≤ D2 ≤ 2. D2 = 1 is consistent with 1D structures formed from TAGwoods, while D2 = 2 implies that the TAGwoods had formed structures characteristic of diffusion or reaction limited cluster-cluster aggregation (DLCA/RLCA). These aggregates exhibited radii of gyration, Rg2, between 2500 and 6500 Å. Level-3 analyses showed diffuse surfaces, for most of the systems. These interpretations are in accord with theoretical models which studied crystalline nano-platelets (CNPs) coated with nano-scale layers arising from phase separation at the CNP surfaces. These layers could be due to either liquid-liquid phase separation with the CNPs coated, uniformly or non-uniformly, by a diffuse layer of TAGs, or solid-liquid phase separation with the CNPs coated by a rough layer of crystallites. A fundamental understanding of the self-organizing structures arising in these systems helps advance the characterization of fat crystal networks from nanometres to micrometres. This research can be used to design novel fat structures that use healthier fats via nano- and meso-scale structural engineering.

  13. Versatile wide angle diffraction setup for simultaneous wide and small angle x-ray scattering measurements with synchrotron radiation

    SciTech Connect

    Rueda, D.R.; Garcia-Gutierrez, M.C.; Nogales, A.; Capitan, M.J.; Ezquerra, T.A.; Labrador, A.; Fraga, E.; Beltran, D.; Juanhuix, J.; Herranz, J.F.; Bordas, J.

    2006-03-15

    Here we present a novel, simple, and versatile experimental setup aimed to perform wide angle x-ray scattering (WAXS) measurements alone or in simultaneous combination with small angle x-ray scattering measurements. The design of the WAXS goniometer allows one to obtain high resolution diffraction patterns in a broad angular range. The setup can incorporate a hot stage in order to evaluate temperature resolved experiments. The performance of the equipment has been verified in the BM16 beam line of the European Synchrotron Radiation Facility with different well known samples such as alumina, isotropic film of high density polyethylene (HDPE), and oriented HPDE fiber.

  14. Grazing-incidence small-angle X-ray scattering: application to the study of quantum dot lattices

    SciTech Connect

    Buljan, Maja Radić, Nikola; Bernstorff, Sigrid; Dražić, Goran; Bogdanović-Radović, Iva; Holý, Václav

    2012-01-01

    The modelling of grazing-incidence small-angle X-ray scattering (GISAXS) from three-dimensional quantum dot lattices is described. The ordering of quantum dots in three-dimensional quantum dot lattices is investigated by grazing-incidence small-angle X-ray scattering (GISAXS). Theoretical models describing GISAXS intensity distributions for three general classes of lattices of quantum dots are proposed. The classes differ in the type of disorder of the positions of the quantum dots. The models enable full structure determination, including lattice type, lattice parameters, the type and degree of disorder in the quantum dot positions and the distributions of the quantum dot sizes. Applications of the developed models are demonstrated using experimentally measured data from several types of quantum dot lattices formed by a self-assembly process.

  15. Small angle X-ray scattering and transmission electron microscopy study of the Lactobacillus brevis S-layer protein

    NASA Astrophysics Data System (ADS)

    Jääskeläinen, Pentti; Engelhardt, Peter; Hynönen, Ulla; Torkkeli, Mika; Palva, Airi; Serimaa, Ritva

    2010-10-01

    The structure of self-assembly domain containing recombinant truncation mutants of Lactobacillus brevis surface layer protein SlpA in aqueous solution was studied using small-angle X-ray scattering and transmission electron microscopy. The proteins were found out to interact with each other forming stable globular oligomers of about 10 monomers. The maximum diameter of the oligomers varied between 75 Å and 435 Å.

  16. Method to study sample object size limit of small-angle x-ray scattering computed tomography

    NASA Astrophysics Data System (ADS)

    Choi, Mina; Ghammraoui, Bahaa; Badal, Andreu; Badano, Aldo

    2016-03-01

    Small-angle x-ray scattering (SAXS) imaging is an emerging medical tool that can be used for in vivo detailed tissue characterization and has the potential to provide added contrast to conventional x-ray projection and CT imaging. We used a publicly available MC-GPU code to simulate x-ray trajectories in a SAXS-CT geometry for a target material embedded in a water background material with varying sample sizes (1, 3, 5, and 10 mm). Our target materials were water solution of gold nanoparticle (GNP) spheres with a radius of 6 nm and a water solution with dissolved serum albumin (BSA) proteins due to their well-characterized scatter profiles at small angles and highly scattering properties. The background material was water. Our objective is to study how the reconstructed scatter profile degrades at larger target imaging depths and increasing sample sizes. We have found that scatter profiles of the GNP in water can still be reconstructed at depths up to 5 mm embedded at the center of a 10 mm sample. Scatter profiles of BSA in water were also reconstructed at depths up to 5 mm in a 10 mm sample but with noticeable signal degradation as compared to the GNP sample. This work presents a method to study the sample size limits for future SAXS-CT imaging systems.

  17. Small-Angle X-ray Scattering Study of Intramuscular Fish Bone: Collagen Fibril Superstructure Determined from Equidistant Meridional Reflections

    SciTech Connect

    Burger,C.; Zhou, H.; Sics, I.; Hsiao, B.; Chu, B.; Graham, L.; Glimcher, M.

    2008-01-01

    New insights into the bone collagen fibril superstructure have been obtained by novel small-angle X-ray scattering analysis. The analysis was carried out on the small-angle equidistant meridional reflections resulting from the periodic structure of collagen fibrils in their axial direction. Conventional two-dimensional analysis is difficult because of the large discrepancy of longitudinal and lateral length scales for individual fibrils, as well as their preferred orientation. The new approach represents an unapproximated analysis of the equidistant meridional reflections, which takes the exact separation of preferred orientation and fibril size effects into account. The analytical results (e.g. axial period, fibril diameter etc.) agree well with the parameters obtained from transmission electron microscopy.

  18. Single-crystal CVD diamonds as small-angle X-ray scattering windows for high-pressure research

    PubMed Central

    Wang, Suntao; Meng, Yu-fei; Ando, Nozomi; Tate, Mark; Krasnicki, Szczesny; Yan, Chih-shiue; Liang, Qi; Lai, Joseph; Mao, Ho-kwang; Gruner, Sol M.; Hemley, Russell J.

    2012-01-01

    Small-angle X-ray scattering (SAXS) was performed on single-crystal chemical vapor deposition (CVD) diamonds with low nitrogen concentrations, which were fabricated by microwave plasma-assisted chemical vapor deposition at high growth rates. High optical quality undoped 500 µm-thick single-crystal CVD diamonds grown without intentional nitrogen addition proved to be excellent as windows on SAXS cells, yielding parasitic scattering no more intense than a 7.5 µm-thick Kapton film. A single-crystal CVD diamond window was successfully used in a high-pressure SAXS cell. PMID:22675230

  19. Quaternary structure of alpha-crustacyanin from lobster as seen by small-angle X-ray scattering.

    PubMed

    Dellisanti, Cosma D; Spinelli, Silvia; Cambillau, Christian; Findlay, John B C; Zagalsky, Peter F; Finet, Stéphanie; Receveur-Bréchot, Véronique

    2003-06-01

    The structure of alpha-crustacyanin, the blue carotenoprotein of lobster (Homarus gammarus) carapace, has been investigated for the first time using small-angle X-ray scattering. In this paper, we have determined the dimensions of this protein composed of eight heterodimeric subunits of beta-crustacyanin. Analysis of the scattering spectra and estimation of the shape of alpha-crustacyanin show that the protein fits into a cylinder with an axial length of 238 A and a radius of 47.5 A, in which the eight beta-crustacyanin molecules are probably arranged in a helical manner. PMID:12782314

  20. Determination of some structural and dispersion characteristics of Perftoran emulsions by the small-angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Aul'chenko, V. M.; Vazina, A. A.; Galimov, P. V.; Korneev, V. N.; Maevskii, E. I.; Matyushin, A. M.; Tuzikov, F. V.; Tuzikova, N. A.

    2005-05-01

    By the method of small-angle X-ray scattering, it is shown that preparation Perftoran—the blood substitute with the function of carrying oxygen—contains a huge amount of spherical micellar particles in an abundance, essentially of smaller sizes, than a particle of an emulsion of perfluorochemicals. The distribution function of the form and the size of micellar particles of preparation Perftoran is determined. The assumption, that a number of clinical properties of a preparation is caused by these particles is put forward.

  1. Grazing incidence small angle X-ray scattering study of silver nanoparticles in ion-exchanged glasses

    NASA Astrophysics Data System (ADS)

    Cheng, Weidong; Wu, Zhaojun; Gu, Xiaohua; Xing, Xueqing; Mo, Guang; Wu, Zhonghua

    2015-05-01

    The size and distribution of silver nanoparticles in ion-exchanged silicate glass induced by thermal treatments in air at different temperatures were investigated by means of grazing incidence small angle X-ray scattering technique, X-ray diffraction and optical absorption spectra. Silver-sodium ion exchange of soda-lime silicate glasses was done at 350 °C for 240 min, then the samples were treated by thermal annealing in air at different temperatures 400, 500 and 550 °C, respectively, for 1 h. After the annealing treatment above 400 °C for 1 h, smaller Ag nanoparticles occurred, together with bigger ones. Both dissolution of smaller Ag nanoparticles and diffusion of larger ones are discussed in these stages of annealing in this contribution.

  2. Performance of the micro-PIC gaseous area detector in small-angle X-ray scattering experiments.

    PubMed

    Hattori, Kaori; Tsuchiya, Ken'ichi; Ito, Kazuki; Okada, Yoko; Fujii, Kotaro; Kubo, Hidetoshi; Miuchi, Kentaro; Takata, Masaki; Tanimori, Toru; Uekusa, Hidehiro

    2009-03-01

    The application of a two-dimensional photon-counting detector based on a micro-pixel gas chamber (micro-PIC) to high-resolution small-angle X-ray scattering (SAXS), and its performance, are reported. The micro-PIC is a micro-pattern gaseous detector fabricated by printed circuit board technology. This article describes the performance of the micro-PIC in SAXS experiments at SPring-8. A dynamic range of >10(5) was obtained for X-ray scattering from a polystyrene sphere solution. A maximum counting rate of up to 5 MHz was observed with good linearity and without saturation. For a diffraction pattern of collagen, weak peaks were observed in the high-angle region in one accumulation of photons.

  3. Small-angle X-ray scattering: a bridge between RNA secondary structures and three-dimensional topological structures

    SciTech Connect

    Fang, Xianyang; Stagno, Jason R.; Bhandari, Yuba R.; Zuo, Xiaobing; Wang, Yun-Xing

    2015-02-01

    Whereas the structures of small to medium-sized well folded RNA molecules often can be determined by either X-ray crystallography or NMR spectroscopy, obtaining structural information for large RNAs using experimental, computational, or combined approaches remains a major interest and challenge. RNA is very sensitive to small-angle X-ray scattering (SAXS) due to high electron density along phosphate-sugar backbones, whose scattering contribution dominates SAXS intensity. For this reason, SAXS is particularly useful in obtaining global RNA structural information that outlines backbone topologies and, therefore, molecular envelopes. Such information is extremely valuable in bridging the gap between the secondary structures and three-dimensional topological structures of RNAmolecules, particularly those that have proven difficult to study using other structuredetermination methods. Here we review published results of RNA topological structures derived from SAXS data or in combination with other experimental data, as well as details on RNA sample preparation for SAXS experiments.

  4. X-Ray Dust Scattering At Small Angles: The Complete Halo Around GX13+1

    NASA Technical Reports Server (NTRS)

    Smith, Randall K.

    2007-01-01

    The exquisite angular resolution available with Chandra should allow precision measurements of faint diffuse emission surrounding bright sources, such as the X-ray scattering halos created by interstellar dust. However, the ACIS CCDs suffer from pileup when observing bright sources, and this creates difficulties when trying to extract the scattered halo near the source. The initial study of the X-ray halo around GX13+1 using only the ACIS-I detector done by Smith, Edgar & Shafer (2002) suffered from a lack of sensitivity within 50" of the source, limiting what conclusions could be drawn. To address this problem, observations of GX13+1 were obtained with the Chandra HRC-I and simultaneously with the RXTE PCA. Combined with the existing ACIS-I data, this allowed measurements of the X-ray halo between 2-1000". After considering a range of dust models, each assumed to be smoothly distributed with or without a dense cloud along the line of sight, the results show that there is no evidence in this data for a dense cloud near the source, as suggested by Xiang et al. (2005). In addition, although no model leads to formally acceptable results, the Weingartner & Draine (2001) and all but one of the composite grain models from Zubko, Dwek & Arendt (2004) give particularly poor fits.

  5. Mineral crystal alignment in mineralized fracture callus determined by 3D small-angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Liu, Yifei; Manjubala, Inderchand; Roschger, Paul; Schell, Hanna; Duda, Georg N.; Fratzl, Peter

    2010-10-01

    Callus tissue formed during bone fracture healing is a mixture of different tissue types as revealed by histological analysis. But the structural characteristics of mineral crystals within the healing callus are not well known. Since two-dimensional (2D) scanning small-angle X-ray scattering (sSAXS) patterns showed that the size and orientation of callus crystals vary both spatially and temporally [1] and 2D electron microscopic analysis implies an anisotropic property of the callus morphology, the mineral crystals within the callus are also expected to vary in size and orientation in 3D. Three-dimensional small-angle X-ray scattering (3D SAXS), which combines 2D SAXS patterns collected at different angles of sample tilting, has been previously applied to investigate bone minerals in horse radius [2] and oim/oim mouse femur/tibia [3]. We implement a similar 3D SAXS method but with a different way of data analysis to gather information on the mineral alignment in fracture callus. With the proposed accurate yet fast assessment of 3D SAXS information, it was shown that the plate shaped mineral particles in the healing callus were aligned in groups with their predominant orientations occurring as a fiber texture.

  6. Investigation of the structure of unilamellar dimyristoylphosphatidylcholine vesicles in aqueous sucrose solutions by small-angle neutron and X-ray scattering

    SciTech Connect

    Kiselev, M. A. Zemlyanaya, E. V.; Zhabitskaya, E. I.; Aksenov, V. L.

    2015-01-15

    The structure of a polydispersed population of unilamellar dimyristoylphosphatidylcholine (DMPC) vesicles in sucrose solutions has been investigated by small-angle neutron scattering (SANS) and small-angle X-ray scattering (SAXS). Calculations within the model of separated form factors (SFF) show that the structure of the vesicle system depends strongly on the sucrose concentration.

  7. Application of ultra-small-angle X-ray scattering / X-ray photon correlation spectroscopy to relate equilibrium or non-equilibrium dynamics to microstructure

    NASA Astrophysics Data System (ADS)

    Allen, Andrew; Zhang, Fan; Levine, Lyle; Ilavsky, Jan

    2013-03-01

    Ultra-small-angle X-ray scattering (USAXS) can probe microstructures over the nanometer-to-micrometer scale range. Through use of a small instrument entrance slit, X-ray photon correlation spectroscopy (XPCS) exploits the partial coherence of an X-ray synchrotron undulator beam to provide unprecedented sensitivity to the dynamics of microstructural change. In USAXS/XPCS studies, the dynamics of local structures in a scale range of 100 nm to 1000 nm can be related to an overall hierarchical microstructure extending from 1 nm to more than 1000 nm. Using a point-detection scintillator mode, the equilibrium dynamics at ambient temperature of small particles (which move more slowly than nanoparticles) in aqueous suspension have been quantified directly for the first time. Using a USAXS-XPCS scanning mode for non-equilibrium dynamics incipient processes within dental composites have been elucidated, prior to effects becoming detectable using any other technique. Use of the Advanced Photon Source, an Office of Science User Facility operated for the United States Department of Energy (U.S. DOE) Office of Science by Argonne National Laboratory, was supported by the U.S. DOE under Contract No. DE-AC02-06CH11357.

  8. Time resolved small angle x-ray scattering studies of macromolecular folding

    NASA Astrophysics Data System (ADS)

    Kwok, Lisa; Smith, Heather; Sandy, Alec; Pollack, Lois

    2005-03-01

    Large biological molecules like proteins and RNA, carry out their functions by folding to well-defined three-dimensional structures. We are interested in the physical interactions that direct this self-assembly process. By combining microfabricated rapid mixers with synchrotron x-ray scattering, we have gained insight into the earliest steps of folding of the Tetrahymena ribozyme, a model for large RNAs. Previous work has shown that the first folding step involves electrostatic relaxation of the molecule. We will discuss a recent series of experiments that identify the tertiary contacts that form from within this compact state.

  9. Imaging method based on attenuation, refraction and ultra-small-angle-scattering of x-rays

    DOEpatents

    Wernick, Miles N.; Chapman, Leroy Dean; Oltulu, Oral; Zhong, Zhong

    2005-09-20

    A method for detecting an image of an object by measuring the intensity at a plurality of positions of a transmitted beam of x-ray radiation emitted from the object as a function of angle within the transmitted beam. The intensity measurements of the transmitted beam are obtained by a crystal analyzer positioned at a plurality of angular positions. The plurality of intensity measurements are used to determine the angular intensity spectrum of the transmitted beam. One or more parameters, such as an attenuation property, a refraction property and a scatter property, can be obtained from the angular intensity spectrum and used to display an image of the object.

  10. Small angle x-ray scattering studies of magnetically oriented lipid bilayers.

    PubMed Central

    Hare, B J; Prestegard, J H; Engelman, D M

    1995-01-01

    Magnetically oriented lipid/detergent bilayers are potentially useful for studies of membrane-associated molecules and complexes using x-ray scattering and nuclear magnetic resonance (NMR). To establish whether the system is a reasonable model of a phospholipid bilayer, we have studied the system using x-ray solution scattering to determine the bilayer thickness, interparticle spacing, and orientational parameters for magnetically oriented lipid bilayers. The magnetically orientable samples contain the phospholipid L-alpha-dilauroylphosphatidylcholine (DLPC) and the bile salt analog 3-[(3-cholamidopropyl)dimethylammonio]-2-hydroxy-1-propanesulfonate (CHAPSO) in a 3:1 molar ratio in 70% water (w/v) and are similar to magnetically orientable samples used as NMR media for structural studies of membrane-associated molecules. A bilayer thickness of 30 A was determined for the DLPC/CHAPSO particles, which is the same as the bilayer thickness of pure DLPC vesicles, suggesting that the CHAPSO is not greatly perturbing the lipid bilayer. These data, as well as NMR data on molecules incorporated in the oriented lipid particles, are consistent with the sample consisting of reasonably homogeneous and well dispersed lipid particles. Finally, the orientational energy of the sample suggests that the size of the cooperatively orienting unit in the samples is 2 x 10(7) phospholipid molecules. Images FIGURE 1 PMID:8580332

  11. Structural Significance of Lipid Diversity as Studied by Small Angle Neutron and X-ray Scattering

    PubMed Central

    Kučerka, Norbert; Heberle, Frederick A.; Pan, Jianjun; Katsaras, John

    2015-01-01

    We review recent developments in the rapidly growing field of membrane biophysics, with a focus on the structural properties of single lipid bilayers determined by different scattering techniques, namely neutron and X-ray scattering. The need for accurate lipid structural properties is emphasized by the sometimes conflicting results found in the literature, even in the case of the most studied lipid bilayers. Increasingly, accurate and detailed structural models require more experimental data, such as those from contrast varied neutron scattering and X-ray scattering experiments that are jointly refined with molecular dynamics simulations. This experimental and computational approach produces robust bilayer structural parameters that enable insights, for example, into the interplay between collective membrane properties and its components (e.g., hydrocarbon chain length and unsaturation, and lipid headgroup composition). From model studies such as these, one is better able to appreciate how a real biological membrane can be tuned by balancing the contributions from the lipid’s different moieties (e.g., acyl chains, headgroups, backbones, etc.). PMID:26402708

  12. Structural Significance of Lipid Diversity as Studied by Small Angle Neutron and X-ray Scattering

    DOE PAGESBeta

    Kučerka, Norbert; Heberle, Frederick A.; Pan, Jianjun; Katsaras, John

    2015-09-21

    In this paper, we review recent developments in the rapidly growing field of membrane biophysics, with a focus on the structural properties of single lipid bilayers determined by different scattering techniques, namely neutron and X-ray scattering. The need for accurate lipid structural properties is emphasized by the sometimes conflicting results found in the literature, even in the case of the most studied lipid bilayers. Increasingly, accurate and detailed structural models require more experimental data, such as those from contrast varied neutron scattering and X-ray scattering experiments that are jointly refined with molecular dynamics simulations. This experimental and computational approach producesmore » robust bilayer structural parameters that enable insights, for example, into the interplay between collective membrane properties and its components (e.g., hydrocarbon chain length and unsaturation, and lipid headgroup composition). Finally, from model studies such as these, one is better able to appreciate how a real biological membrane can be tuned by balancing the contributions from the lipid’s different moieties (e.g., acyl chains, headgroups, backbones, etc.).« less

  13. Structural Significance of Lipid Diversity as Studied by Small Angle Neutron and X-ray Scattering

    SciTech Connect

    Kučerka, Norbert; Heberle, Frederick A.; Pan, Jianjun; Katsaras, John

    2015-09-21

    In this paper, we review recent developments in the rapidly growing field of membrane biophysics, with a focus on the structural properties of single lipid bilayers determined by different scattering techniques, namely neutron and X-ray scattering. The need for accurate lipid structural properties is emphasized by the sometimes conflicting results found in the literature, even in the case of the most studied lipid bilayers. Increasingly, accurate and detailed structural models require more experimental data, such as those from contrast varied neutron scattering and X-ray scattering experiments that are jointly refined with molecular dynamics simulations. This experimental and computational approach produces robust bilayer structural parameters that enable insights, for example, into the interplay between collective membrane properties and its components (e.g., hydrocarbon chain length and unsaturation, and lipid headgroup composition). Finally, from model studies such as these, one is better able to appreciate how a real biological membrane can be tuned by balancing the contributions from the lipid’s different moieties (e.g., acyl chains, headgroups, backbones, etc.).

  14. Facilitating model reconstruction for single-particle scattering using small-angle X-ray scattering methods1

    PubMed Central

    Ma, Shufen; Liu, Haiguang

    2016-01-01

    X-ray free-electron lasers generate intense femtosecond X-ray pulses, so that high-resolution structure determination becomes feasible from noncrystalline samples, such as single particles or single molecules. At the moment, the orientation of sample particles cannot be precisely controlled, and consequently the unknown orientation needs to be recovered using computational algorithms. This delays the model reconstruction until all the scattering patterns have been re-oriented, which often entails a long elapse of time and until the completion of the experiment. The scattering patterns from single particles or multiple particles can be summed to form a virtual powder diffraction pattern, and the low-resolution region, corresponding to the small-angle X-ray scattering (SAXS) regime, can be analysed using existing SAXS methods. This work presents a pipeline that converts single-particle data sets into SAXS data, from which real-time model reconstruction is achieved using the model retrieval approach implemented in the software package SASTBX [Liu, Hexemer & Zwart (2012). J. Appl. Cryst.45, 587–593]. To illustrate the applications, two case studies are presented with real experimental data sets collected at the Linac Coherent Light Source. PMID:27047310

  15. Measuring the distribution of cellulose microfibril angles in primary cell walls by small angle X-ray scattering

    PubMed Central

    2014-01-01

    Background X-ray scattering is a well-established method for measuring cellulose microfibril angles in secondary cell walls. However, little data is available on the much thinner primary cell walls. Here, we show that microfibril orientation distributions can be determined by small angle X-ray scattering (SAXS) even in primary cell walls. The technique offers a number of advantages: samples can be analyzed in the native hydrated state without any preparation which minimizes the risk of artifacts and allows for fast data acquisition. The method provides data averaged over a specimen region, determined by the size of the used X-ray beam and, thus, yields the microfibril orientation distribution within this region. Results Cellulose microfibril orientation distributions were obtained for single cells of the alga Chara corallina, as well as for the multicellular hypocotyl of Arabidopsis thaliana. In both, Chara and Arabidopsis, distributions with a broad scattering around mean microfibril angles of approximately 0° and 90° towards the longitudinal axis of the cells were found. Conclusions With SAXS, the structure of primary cell walls can be analysed in their native state and new insights into the cellulose microfibril orientation of primary cell walls can be gained. The data shows that SAXS can serve as a valuable tool for the analysis of cellulose microfibril orientation in primary cell walls and, in consequence, add to the understanding of its mechanical behaviour and the intriguing mechanisms behind cell growth. PMID:25170343

  16. Polypod-Shaped DNAs: Small-Angle X-ray Scattering and Immunostimulatory Activity.

    PubMed

    Sanada, Yusuke; Shiomi, Tomoki; Okobira, Tadashi; Tan, Mengmeng; Nishikawa, Makiya; Akiba, Isamu; Takakura, Yoshinobu; Sakurai, Kazuo

    2016-04-19

    We explored in detail the relationship between the structure in aqueous solution and immunostimulatory activity of polypod-shaped DNAs, called polypodnas. The polypodnas were constructed using 3-6 oligodeoxynucleotides (ODNs) to obtain tri-, tetra-, penta-, and hexapodna, each of which had 3, 4, 5, and 6 arms made of double-stranded DNA, respectively. A highly potent immunostimulatory CpG sequence was included into each of the polypodnas. Synchrotron X-ray scattering analysis showed that the double-stranded DNA arms of all of the polypodnas adopted a B-form DNA conformation. The analysis also suggested that some nucleotides in the central parts of pentapodna and hexapodna did not form base pairs, whereas those of tripodna and tetrapodna all formed base pairs. This difference would occur because of an increase in steric hindrance and electrical repulsion with increasing number of arms. The pentapodna and hexapodna induced a large amount of tumor necrosis factor α-release from macrophage-like cells compared with the tripodna and tetrapodna, suggesting that the partly loosened DNA in polypodna with many arms is advantageous for exposing the immunostimulatory sequences of the polypodna. PMID:27007061

  17. In situ probing calcium carbonate formation by combining fast controlled precipitation method and small-angle X-ray scattering.

    PubMed

    Chao, Yanjia; Horner, Olivier; Vallée, Philippe; Meneau, Florian; Alos-Ramos, Olga; Hui, Franck; Turmine, Mireille; Perrot, Hubert; Lédion, Jean

    2014-04-01

    The initial stage of calcium carbonate nucleation and growth, found usually in "natural" precipitation conditions, is still not well understood. The calcium carbonate formation for moderate supersaturation level could be achieved by an original method called the fast controlled precipitation (FCP) method. FCP was coupled with SAXS (small-angle X-ray scattering) measurements to get insight into the nucleation and growth mechanisms of calcium carbonate particles in Ca(HCO3)2 aqueous solutions. Two size distributions of particles were observed. The particle size evolutions of these two distributions were obtained by analyzing the SAXS data. A nice agreement was obtained between the total volume fractions of CaCO3 obtained by SAXS analysis and by pH-resistivity curve modeling (from FCP tests).

  18. Structural investigations of E. Coli dihydrolipoamide dehydrogenase in solution: Small-angle X-ray scattering and molecular docking

    NASA Astrophysics Data System (ADS)

    Dadinova, L. A.; Rodina, E. V.; Vorobyeva, N. N.; Kurilova, S. A.; Nazarova, T. I.; Shtykova, E. V.

    2016-05-01

    Dihydrolipoamide dehydrogenase from Escherichia coli (LpD) is a bacterial enzyme that is involved in the central metabolism and shared in common between the pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase complexes. In the crystal structure, E. coli LpD is known to exist as a dimer. The present work is focused on analyzing the solution structure of LpD by small-angle X-ray scattering, molecular docking, and analytical ultracentrifugation. It was shown that in solution LpD exists as an equilibrium mixture of a dimer and a tetramer. The presence of oligomeric forms is determined by the multifunctionality of LpD in the cell, in particular, the required stoichiometry in the complexes.

  19. A small-angle X-ray scattering study of alpha-synuclein from human red blood cells

    PubMed Central

    Araki, Katsuya; Yagi, Naoto; Nakatani, Rie; Sekiguchi, Hiroshi; So, Masatomo; Yagi, Hisashi; Ohta, Noboru; Nagai, Yoshitaka; Goto, Yuji; Mochizuki, Hideki

    2016-01-01

    α-synuclein (α-syn) is the main component of Lewy bodies, which are neuropathological hallmarks of patients with Parkinson’s disease. As it has been controversial whether human α-syn from erythrocytes exists as a tetramer under physiological conditions, we tried solving this issue by the small-angle X-ray solution scattering method. Under two different conditions (high ionic strength with a Tris buffer and low ionic strength with an ammonium acetate buffer), no evidence was found for the presence of tetramer. When comparing erythrocyte and recombinant α-syn molecules, we found no significant difference of the molecular weight and the secondary structure although the buffer conditions strongly affect the radius of gyration of the protein. The results indicate that, even though a stable tetramer may not be formed, conformation of α-syn depends much on its environment, which may be the reason for its tendency to aggregate in cells. PMID:27469540

  20. Early nucleation events in the polymerization of actin, probed by time-resolved small-angle x-ray scattering

    PubMed Central

    Oda, Toshiro; Aihara, Tomoki; Wakabayashi, Katsuzo

    2016-01-01

    Nucleators generating new F-actin filaments play important roles in cell activities. Detailed information concerning the events involved in nucleation of actin alone in vitro is fundamental to understanding these processes, but such information has been hard to come by. We addressed the early process of salt-induced polymerization of actin using the time-resolved synchrotron small-angle X-ray scattering (SAXS). Actin molecules in low salt solution maintain a monomeric state by an electrostatic repulsive force between molecules. On mixing with salts, the repulsive force was rapidly screened, causing an immediate formation of many of non-polymerizable dimers. SAXS kinetic analysis revealed that tetramerization gives the highest energetic barrier to further polymerization, and the major nucleation is the formation of helical tetramers. Filaments start to grow rapidly with the formation of pentamers. These findings suggest an acceleration mechanism of actin assembly by a variety of nucleators in cells. PMID:27775032

  1. X-ray magnetic circular dichroism and small angle neutron scattering study of thiol capped gold nanoparticles.

    SciTech Connect

    de la Venta, J.; Bouzas, V.; Pucci, A.; Laguna-Marco, M. A.; Haskel, D.; Pinel, E. F.; te Velthuis, S. G. E.; Hoffmann, A.; Lal, J.; Bleuel, M.; Ruggeri, G.; de Julian, C.; Garcia, M. A.; Univ. Complutense de Madrid; Inst. de Magnetismo Aplicado UCM; Univ. Pisa; Univ. di Padova

    2009-11-01

    X-ray magnetic circular dichroism (XMCD) and Small Angle Neutron Scattering (SANS) measurements were performed on thiol capped Au nanoparticles (NPs) embedded into polyethylene. An XMCD signal of 0.8 {center_dot} 10{sup -4} was found at the Au L{sub 3} edge of thiol capped Au NPs embedded in a polyethylene matrix for which Superconducting Quantum Interference Device (SQUID) magnetometry yielded a saturation magnetization, M{sub s}, of 0.06 emu/g{sub Au}. SANS measurements showed that the 3.2 nm average-diameter nanoparticles are 28% polydispersed, but no detectable SANS magnetic signal was found with the resolution and sensitivity accessible with the neutron experiment. A comparison with previous experiments carried out on Au NPs and multilayers, yield to different values between XMCD signals and magnetization measured by SQUID magnetometer. We discuss the origin of those differences.

  2. A small-angle X-ray scattering study of alpha-synuclein from human red blood cells.

    PubMed

    Araki, Katsuya; Yagi, Naoto; Nakatani, Rie; Sekiguchi, Hiroshi; So, Masatomo; Yagi, Hisashi; Ohta, Noboru; Nagai, Yoshitaka; Goto, Yuji; Mochizuki, Hideki

    2016-01-01

    α-synuclein (α-syn) is the main component of Lewy bodies, which are neuropathological hallmarks of patients with Parkinson's disease. As it has been controversial whether human α-syn from erythrocytes exists as a tetramer under physiological conditions, we tried solving this issue by the small-angle X-ray solution scattering method. Under two different conditions (high ionic strength with a Tris buffer and low ionic strength with an ammonium acetate buffer), no evidence was found for the presence of tetramer. When comparing erythrocyte and recombinant α-syn molecules, we found no significant difference of the molecular weight and the secondary structure although the buffer conditions strongly affect the radius of gyration of the protein. The results indicate that, even though a stable tetramer may not be formed, conformation of α-syn depends much on its environment, which may be the reason for its tendency to aggregate in cells. PMID:27469540

  3. Characterizing the Morphologies of Mechanically Manipulated Multiwall Carbon Nanotube Films by Small-Angle X-ray Scattering

    SciTech Connect

    Wang,B.; Bennett, R.; Verploegen, E.; Hart, A.; Cohen, R.

    2007-01-01

    We used small-angle X-ray scattering (SAXS) to quantitatively characterize the morphological characteristics of pristine and mechanically manipulated multiwall carbon nanotube (MWCNT) films. We determined that CNT diameters measured near the edges of a film were smaller compared to those measured in the interior. Uniaxially compressed MWCNT films exhibited a buckling deformation that was observable both in scanning electron microscopy (SEM) and SAXS. CNT films were also converted into cellular foams of CNTs through capillarity-induced densification. By examining spatially- and time-resolved SAXS data for the cellular foams, we identified low angle features in the scattering curves that correspond to the average spacing between CNTs, demonstrating that SAXS is a useful method for monitoring the packing density of CNTs in a film. For all of the morphologies that were examined (aligned, disordered, compressed, and densified), SAXS data showed good correspondence with SEM images.

  4. Distribution of Sulfur in Carbon/Sulfur Nanocomposites Analyzed by Small-Angle X-ray Scattering.

    PubMed

    Petzold, Albrecht; Juhl, Anika; Scholz, Jonas; Ufer, Boris; Goerigk, Günter; Fröba, Michael; Ballauff, Matthias; Mascotto, Simone

    2016-03-22

    The analysis of sulfur distribution in porous carbon/sulfur nanocomposites using small-angle X-ray scattering (SAXS) is presented. Ordered porous CMK-8 carbon was used as the host matrix and gradually filled with sulfur (20-50 wt %) via melt impregnation. Owing to the almost complete match between the electron densities of carbon and sulfur, the porous nanocomposites present in essence a two-phase system and the filling of the host material can be precisely followed by this method. The absolute scattering intensities normalized per unit of mass were corrected accounting for the scattering contribution of the turbostratic microstructure of carbon and amorphous sulfur. The analysis using the Porod parameter and the chord-length distribution (CLD) approach determined the specific surface areas and filling mechanism of the nanocomposite materials, respectively. Thus, SAXS provides comprehensive characterization of the sulfur distribution in porous carbon and valuable information for a deeper understanding of cathode materials of lithium-sulfur batteries.

  5. Resolving Individual Components in Protein-RNA Complexes Using Small-Angle X-ray Scattering Experiments.

    PubMed

    Rambo, Robert P

    2015-01-01

    Small-angle X-ray scattering (SAXS) of protein-RNA complexes has developed into an efficient and economical approach for determining low-resolution shapes of particles in solution. Here, we demonstrate a mutliphase volumetric modeling approach capable of resolving individual components within a low-resolution shape. Through three case studies, we describe the SAXS data collecting strategies, premodeling analysis, and computational methods required for deconstructing complexes into their respective components. This chapter presents an approach using the programs ScÅtter and MONSA and custom scripts for averaging and aligning of multiple independent modeling runs. The method can image small (7kDa) masses within the context of complex and is capable of visualizing ligand-induced conformational changes. Nevertheless, computational algorithms are not without error, and we describe specific considerations during SAXS data reduction and modeling to mitigate possible false positives.

  6. Small-angle X-ray scattering study on pectin-chitosan mixed solutions and thermoreversible gels.

    PubMed

    Ventura, Irit; Bianco-Peled, Havazelet

    2015-06-01

    Hot solutions containing pectin and chitosan with pectin weight fraction of 0.75, in acidic pH, demonstrate gelation occurring upon cooling to room temperature. This study explores the origin of this gelation using small angle X-ray scattering (SAXS) as the main experimental tool. Modeling SAXS patterns revealed rigid rod conformation in chitosan solutions, whereas pectin formed a self-avoiding chain. In addition, nanometric aggregates were detected in pectin solutions. Pectin and chitosan in mixed solutions adopted a similar semiflexible conformation. The only sample that created a visually stable gel displayed a different pattern, characteristic to polymers gels. Manipulating the composition by adding urea and salts highlighted the important role of hydrogen bonding, which governs the gelation mechanism. Nevertheless, electrostatic interactions were also found to take part in the gelation. To the best of our knowledge, this is the first comprehensive and systematic SAXS study on these pectin-chitosan mixtures.

  7. Guinier peak analysis for visual and automated inspection of small-angle X-ray scattering data

    PubMed Central

    Putnam, Christopher D.

    2016-01-01

    The Guinier region in small-angle X-ray scattering (SAXS) defines the radius of gyration, R g, and the forward scattering intensity, I(0). In Guinier peak analysis (GPA), the plot of qI(q) versus q 2 transforms the Guinier region into a characteristic peak for visual and automated inspection of data. Deviations of the peak position from the theoretical position in dimensionless GPA plots can suggest parameter errors, problematic low-resolution data, some kinds of intermolecular interactions or elongated scatters. To facilitate automated analysis by GPA, the elongation ratio (ER), which is the ratio of the areas in the pair-distribution function P(r) after and before the P(r) maximum, was characterized; symmetric samples have ER values around 1, and samples with ER values greater than 5 tend to be outliers in GPA analysis. Use of GPA+ER can be a helpful addition to SAXS data analysis pipelines. PMID:27738411

  8. Exploring the melting of a semirigid-chain polymer with temperature-resolved small-angle X-ray scattering.

    PubMed

    Ivanov, D A; Hocquet, S; Dosiére, M; Koch, M H J

    2004-04-01

    The thermal behavior of semirigid semicrystalline polymers differs significantly from that of flexible-chain polymers. The origin of the differences is believed to lie in the higher energy expenditure associated with the formation of adjacent re-entry folds at the crystalline surface in the case of semirigid chains. The effect of constraints imposed by the interlamellar amorphous regions on the neighboring crystals was studied with temperature-resolved synchrotron radiation small-angle X-ray scattering (SAXS). The analysis of SAXS patterns with a generalized paracrystalline lamellar stack model indicates that melting of a semirigid-chain polymer is not a random process but that the crystals grown in the smallest amorphous gaps melt first. This suggests that the hitherto largely neglected geometrical confinement effects may play an important role in determining the thermodynamic stability of semirigid-chain polymer crystals.

  9. Accounting for Observed Small Angle X-ray Scattering Profile in the Protein-Protein Docking Server ClusPro

    PubMed Central

    Xia, Bing; Mamonov, Artem; Leysen, Seppe; Allen, Karen N; Strelkov, Sergei V.; Paschalidis, Ioannis Ch.; Vajda, Sandor; Kozakov, Dima

    2015-01-01

    The protein-protein docking server ClusPro is used by thousands of laboratories, and models built by the server have been reported in over 300 publications. Although the structures generated by the docking include near-native ones for many proteins, selecting the best model is difficult due to the uncertainty in scoring. Small Angle X-ray Scattering (SAXS) is an experimental technique for obtaining low resolution structural information in solution. While not sufficient on its own to uniquely predict complex structures, accounting for SAXS data improves the ranking of models and facilitates the identification of the most accurate structure. Although SAXS profiles are currently available only for a small number of complexes, due to its simplicity the method is becoming increasingly popular. Since combining SAXS experiments will provide a viable strategy for fairly high-throughput determination of protein complex structures, the option of using SAXS restraints is added to the ClusPro server. PMID:26095982

  10. Conformational landscape of cytochrome c folding studied by microsecond-resolved small-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Akiyama, Shuji; Takahashi, Satoshi; Kimura, Tetsunari; Ishimori, Koichiro; Morishima, Isao; Nishikawa, Yukihiro; Fujisawa, Tetsuro

    2002-02-01

    To investigate protein folding dynamics in terms of compactness, we developed a continuous-flow mixing device to make small-angle x-ray scattering measurements with the time resolution of 160 μs and characterized the radius of gyration (Rg) of two folding intermediates of cytochrome c (cyt c). The early intermediate possesses 20 Å of Rg, which is smaller by 4 Å than that of the acid-unfolded state. The Rg of the later intermediate is ≈18 Å, which is close to that of the molten globule state. Considering the α-helix content (fH) of the intermediates, we clarified the folding pathway of cyt c on the conformational landscape defined by Rg and fH. Cyt c folding proceeds with a collapse around a specific region of the protein followed by a cooperative acquisition of secondary structures and compactness.

  11. Monitoring intermediate filament assembly by small-angle x-ray scattering reveals the molecular architecture of assembly intermediates

    PubMed Central

    Sokolova, Anna V.; Kreplak, Laurent; Wedig, Tatjana; Mücke, Norbert; Svergun, Dmitri I.; Herrmann, Harald; Aebi, Ueli; Strelkov, Sergei V.

    2006-01-01

    Intermediate filaments (IFs), along with microtubules, microfilaments, and associated cross-bridging proteins, constitute the cytoskeleton of metazoan cells. While crystallographic data on the dimer representing the elementary IF “building block” have recently become available, little structural detail is known about both the mature IF architecture and its assembly pathway. Here, we have applied solution small-angle x-ray scattering to investigate the in vitro assembly of a 53-kDa human IF protein vimentin at pH 8.4 by systematically varying the ionic strength conditions, and complemented these experiments by electron microscopy and analytical ultracentrifugation. While a vimentin solution in 5 mM Tris·HCl (pH 8.4) contains predominantly tetramers, addition of 20 mM NaCl induces further lateral assembly evidenced by the shift of the sedimentation coeficient and yields a distinct octameric intermediate. Four octamers eventually associate into unit-length filaments (ULFs) that anneal longitudinally. Based on the small-angle x-ray scattering experiments supplemented by crystallographic data and additional structural constraints, 3D molecular models of the vimentin tetramer, octamer, and ULF were constructed. Within each of the three oligomers, the adjacent dimers are aligned exclusively in an approximately half-staggered antiparallel A11 mode with a distance of 3.2–3.4 nm between their axes. The ULF appears to be a dynamic and a relatively loosely packed structure with a roughly even mass distribution over its cross-section. PMID:17050693

  12. New reactor dedicated to in operando studies of model catalysts by means of surface x-ray diffraction and grazing incidence small angle x-ray scattering.

    PubMed

    Saint-Lager, M-C; Bailly, A; Dolle, P; Baudoing-Savois, R; Taunier, P; Garaudée, S; Cuccaro, S; Douillet, S; Geaymond, O; Perroux, G; Tissot, O; Micha, J-S; Ulrich, O; Rieutord, F

    2007-08-01

    A new experimental setup has been developed to enable in situ studies of catalyst surfaces during chemical reactions by means of surface x-ray diffraction (SXRD) and grazing incidence small angle x-ray scattering. The x-ray reactor chamber was designed for both ultrahigh-vacuum (UHV) and reactive gas environments. A laser beam heating of the sample was implemented; the sample temperature reaches 1100 K in UHV and 600 K in the presence of reactive gases. The reactor equipment allows dynamical observations of the surface with various, perfectly mixed gases at controlled partial pressures. It can run in two modes: as a bath reactor in the pressure range of 1-1000 mbars and as a continuous flow cell for pressure lower than 10(-3) mbar. The reactor is connected to an UHV preparation chamber also equipped with low energy electron diffraction and Auger spectroscopy. This setup is thus perfectly well suited to extend in situ studies to more complex surfaces, such as epitaxial films or supported nanoparticles. It offers the possibility to follow the chemically induced changes of the morphology, the structure, the composition, and growth processes of the model catalyst surface during exposure to reactive gases. As an example the Pd(8)Ni(92)(110) surface structure was followed by SXRD under a few millibars of hydrogen and during butadiene hydrogenation while the reaction was monitored by quadrupole mass spectrometry. This experiment evidenced the great sensitivity of the diffracted intensity to the subtle interaction between the surface atoms and the gas molecules.

  13. A Combined Small-Angle X-ray and Neutron Scattering Study of the Structure of Purified Soluble Gastrointestinal Mucins

    PubMed Central

    Georgiades, Pantelis; di Cola, Emanuela; Heenan, Richard K; Pudney, Paul D A; Thornton, David J; Waigh, Thomas A

    2014-01-01

    The structures of purified soluble porcine gastric (Muc5ac) and duodenal (Muc2) mucin solutions at neutral and acidic pH were examined using small-angle X-ray scattering and small-angle neutron scattering experiments. We provide evidence for the morphology of the network above the semidilute overlap concentration and above the entanglement concentration. Furthermore, we investigated the gelation of both types of mucin solutions in response to a reduction in pH, where we observed the formation of large-scale heterogeneities within the polymer solutions, typical of microphase-separated gels. The concentration dependence of the inhomogeneity length scale (Ξ) and the amplitude of the excess scattering intensity [Iex(0)] are consistent with previously studied gelled synthetic polymeric systems. The persistence lengths of the chains were found to be similar for both Muc5ac and Muc2 from Kratky plots of the neutron data (8 ± 2 nm). © 2014 Wiley Periodicals, Inc. Biopolymers 101: 1154–1164, 2014. PMID:25041765

  14. A Method for Helical RNA Global Structure Determination in Solution Using Small Angle X-ray Scattering and NMR Measurements

    PubMed Central

    Wang, Jinbu; Zuo, Xiaobing; Yu, Ping; Xu, Huan; Starich, Mary R.; Tiede, David M.; Shapiro, Bruce A.; Schwieters, Charles D.; Wang, Yun-Xing

    2009-01-01

    We report a “top-down” method that uses mainly duplexes' global orientations and overall molecular dimension and shape restraints, which were extracted from experimental NMR and small angle X-ray scattering (SAXS) data respectively, to determine global architectures of RNA molecules consisting of mostly A-form like duplexes. The method is implemented in the G2G (from Global measurement to Global Structure) toolkit of programs. We demonstrate the efficiency and accuracy of the method by determining the global structure of a 71-nucleotide RNA using experimental data. The backbone root-mean-square-deviation (RMSD) of the ensemble of the calculated global structures relative to the X-ray crystal structure using the experimental data is 3.0 ± 0.3 Å, and the RMSD is only 2.5 ± 0.2 Å for the three duplexes that were orientation-restrained during the calculation. The global structure simplifies interpretation of multi-dimensional nuclear Overhauser spectra for high resolution structure determination. The potential general application of the method for RNA structure determination is discussed. PMID:19666030

  15. Magnetar-like X-ray bursts from an anomalous X-ray pulsar.

    PubMed

    Gavriil, F P; Kaspi, V M; Woods, P M

    2002-09-12

    Anomalous X-ray pulsars (AXPs) are a class of rare X-ray emitting pulsars whose energy source has been perplexing for some 20 years. Unlike other X-ray emitting pulsars, AXPs cannot be powered by rotational energy or by accretion of matter from a binary companion star, hence the designation 'anomalous'. Many of the rotational and radiative properties of the AXPs are strikingly similar to those of another class of exotic objects, the soft-gamma-ray repeaters (SGRs). But the defining property of the SGRs--their low-energy-gamma-ray and X-ray bursts--has not hitherto been observed for AXPs. Soft-gamma-ray repeaters are thought to be 'magnetars', which are young neutron stars whose emission is powered by the decay of an ultra-high magnetic field; the suggestion that AXPs might also be magnetars has been controversial. Here we report two X-ray bursts, with properties similar to those of SGRs, from the direction of the anomalous X-ray pulsar 1E1048.1 - 5937. These events imply a close relationship (perhaps evolutionary) between AXPs and SGRs, with both being magnetars.

  16. Characterization of nanofibers formed by self-assembly of {beta}-peptide oligomers using small angle x-ray scattering

    SciTech Connect

    Pizzey, Claire L.; Abbott, Nicholas L.; Pomerantz, William C.; Sung, Bong-June; Gellman, Samuel H.; Yethiraj, Arun; Yuwono, Virany M.; Hartgerink, Jeffery D.

    2008-09-07

    Helical oligomers of {beta}-peptides represent a particularly promising type of building block for directed assembly of organic nanostructures because the helical secondary structure can be designed to be very stable and because control of the {beta}-amino acid sequence can lead to precise patterning of chemical functional groups over the helix surfaces. In this paper, we report the use of small angle x-ray scattering measurements (SAXS) to characterize nanostructures formed by the directed assembly of {beta}-peptide A with sequence H{sub 2}N-{beta}{sup 3}hTyr-{beta}{sup 3}hLys-{beta}{sup 3}hPhe-ACHC-{beta}{sup 3}hPhe-ACHC-{beta}{sup 3}hPhe-{beta}{sup 3}hLys-ACHC-ACHC-{beta}{sup 3}hPhe-{beta}{sup 3}hLys-CONH{sub 2}. Whereas prior cryo-TEM studies have revealed the presence of nanofibers in aqueous solutions of {beta}-peptide A, SAXS measurements from the nanofibers were not well-fit by a form factor model describing solid nanofibers. An improved fit to the scattering data at high q was obtained by using a form factor model describing a cylinder with a hollow center and radial polydispersity. When combined with a structure factor calculated from the polymer reference interaction site model (PRISM) theory, the scattered intensity of x-rays measured over the entire q range was well described by the model. Analysis of our SAXS data suggests a model in which individual {beta}-peptides assemble to form long cylindrical nanofibers with a hollow core radius of 15 A (polydispersity of 21%) and a shell thickness of 20 A. This model is supported by negative stain transmission electron microscopy.

  17. Crystallization of a layered silicate clay as monitored by small- angle x-ray scattering and NMR.

    SciTech Connect

    Carrado, K. A.; Xu, L.; Gregory, D.; Song, K.; Seifert, S.; Botto, R. E.; Chemistry

    2000-10-01

    The 48-h hydrothermal crystallization of a magnesium silicate clay called hectorite has been investigated in detail. Tetraethylammonium (TEA) ions are used to aid crystallization and become incorporated as the exchange cations within the interlayers. Data from small-angle X-ray scattering (SAXS) using aliquots ex situ are consistent with results obtained previously by X-ray powder diffraction (XRD), thermal gravimetric analysis (TGA), atomic force microscopy (AFM), and IR. All these techniques see clay crystallites beginning to form within the first few hours of reaction. {sup 29}Si NMR displays a visible clay silicate peak after just 1 h. Solid-state {sup 13}C NMR shows evidence of TEA-clay formation in as little as 30 min and also that 80% of the final TEA loading is accomplished in the first 10-12 h. Up to 36 h more is needed to incorporate the remaining 20% of TEA, indicating that a slower event is dominating at the later stages of crystallization. Data from {sup 13}C NMR and SAXS are compared to and are consistent with data from earlier AFM experiments. All present a scenario where initial nucleation and crystallization end after about 14 h, after which this occurs to a lesser extent and primarily agglomeration of particles is taking place. The SAXS data show this in progressively increasing power law values, indicating more 'open' structures that condense into more dense structures with time. In addition, the first in situ study of clay crystallization of any kind was performed by in situ SAXS. A possible clay crystallization mechanism is proposed.

  18. Critical dimension small angle X-ray scattering measurements of FinFET and 3D memory structures

    NASA Astrophysics Data System (ADS)

    Settens, Charles; Bunday, Benjamin; Thiel, Brad; Kline, R. Joseph; Sunday, Daniel; Wang, Chengqing; Wu, Wen-li; Matyi, Richard

    2013-04-01

    We have demonstrated that transmission critical dimension small angle X-ray scattering (CD-SAXS) provides high accuracy and precision CD measurements on advanced 3D microelectronic architectures. The competitive advantage of CD-SAXS over current 3D metrology methods such as optical scatterometry is that CD-SAXS is able to decouple and fit cross-section parameters without any significant parameter cross-correlations. As the industry aggressively scales beyond the 22 nm node, CD-SAXS can be used to quantitatively measure nanoscale deviations in the average crosssections of FinFETs and high-aspect ratio (HAR) memory devices. Fitting the average cross-section of 18:1 isolated HAR contact holes with an effective trapezoid model yielded an average pitch of 796.9 +/- 0.4 nm, top diameter of 70.3 +/- 0.9 nm, height of 1088 +/- 4 nm, and sidewall angle below 0.1°. Simulations of dense 40:1 HAR contact holes and FinFET fin-gate crossbar structures have been analyzed using CD-SAXS to inquire the theoretical precision of the technique to measure important process parameters such as fin CD, height, and sidewall angle; BOX etch recess, thickness of hafnium oxide and titanium nitride layers; gate CD, height, and sidewall angle; and hafnium oxide and titanium nitride etch recess. The simulations of HAR and FinFET structures mimic the characteristics of experimental data collected at a synchrotron x-ray source. Using the CD-SAXS simulator, we estimate the measurement capabilities for smaller similar structures expected at future nodes to predict the applicability of this technique to fulfill important CD metrology needs.

  19. High-throughput biological small-angle X-ray scattering with a robotically loaded capillary cell

    PubMed Central

    Nielsen, S. S.; Møller, M.; Gillilan, R. E.

    2012-01-01

    With the rise in popularity of biological small-angle X-ray scattering (BioSAXS) measurements, synchrotron beamlines are confronted with an ever-increasing number of samples from a wide range of solution conditions. To meet these demands, an increasing number of beamlines worldwide have begun to provide automated liquid-handling systems for sample loading. This article presents an automated sample-loading system for BioSAXS beamlines, which combines single-channel disposable-tip pipetting with a vacuum-enclosed temperature-controlled capillary flow cell. The design incorporates an easily changeable capillary to reduce the incidence of X-ray window fouling and cross contamination. Both the robot-control and the data-processing systems are written in Python. The data-processing code, RAW, has been enhanced with several new features to form a user-friendly BioSAXS pipeline for the robot. The flow cell also supports efficient manual loading and sample recovery. An effective rinse protocol for the sample cell is developed and tested. Fluid dynamics within the sample capillary reveals a vortex ring pattern of circulation that redistributes radiation-damaged material. Radiation damage is most severe in the boundary layer near the capillary surface. At typical flow speeds, capillaries below 2 mm in diameter are beginning to enter the Stokes (creeping flow) regime in which mixing due to oscillation is limited. Analysis within this regime shows that single-pass exposure and multiple-pass exposure of a sample plug are functionally the same with regard to exposed volume when plug motion reversal is slow. The robot was tested on three different beamlines at the Cornell High-Energy Synchrotron Source, with a variety of detectors and beam characteristics, and it has been used successfully in several published studies as well as in two introductory short courses on basic BioSAXS methods. PMID:22509071

  20. Strontium and bone nanostructure in normal and ovariectomized rats investigated by scanning small-angle X-ray scattering.

    PubMed

    Bünger, Mathias H; Oxlund, Hans; Hansen, Toke K; Sørensen, Søren; Bibby, Bo M; Thomsen, Jesper S; Langdahl, Bente L; Besenbacher, Flemming; Pedersen, Jan S; Birkedal, Henrik

    2010-04-01

    The effect of SrCl(2) treatment on bone nanostructure in a rat ovariectomy model was studied using scanning small-angle X-ray scattering (sSAXS). Twelve 6-month-old female Wistar rats were used. Six animals were ovariectomized (+ovx) and six were left intact after sham surgery (-ovx). Six animals, three +ovx and three -ovx, were treated with 4 mmol SrCl(2) (aq)/kg/day (+Sr), whereas the remaining six received placebo (-Sr) for 140 days. Rats were labeled with flourochromes at days 7, 126, and 136. Femoral cross sections were studied using fluorescence microscopy, scanning electron microscopy including energy-dispersive X-ray analysis, and sSAXS. The SAXS data comprised about 5,500 measurements and provided information about mineral crystal thickness and orientation in new and old bone. The newly formed bone contained higher levels of Sr(2+) in +Sr than in -Sr animals, indicating that the Sr(2+) was incorporated into the new bone. Mineral plates were significantly thicker in old bone, 2.62 nm (95% CI 2.58-2.66), than in new bone, 2.41 nm (95% CI 2.36-2.46). Surprisingly, mineral plates in new bone were significantly thicker (2.52 [95% CI 2.47-2.57] nm vs. 2.41 [95% CI 2.36-2.46] nm, P = 0.017) in +ovx rats than in -ovx rats. However, no significant effect of SrCl(2) on mineral plate thicknesses in new bone was observed. The statistical model yielded estimates of the difference in bone mineral plate thickness induced by Sr. The estimated effect of Sr was -0.09 (95% CI -0.21 to 0.03) and 0.02 (95% CI -0.10 to 0.14) nm for new bone in -ovx and +ovx rats, respectively. PMID:20221590

  1. Small-angle scattering computed tomography (SAS-CT) using a Talbot-Lau interferometer and a rotating anode x-ray tube: theory and experiments

    PubMed Central

    Chen, Guang-Hong; Bevins, Nicholas; Zambelli, Joseph; Qi, Zhihua

    2013-01-01

    X-ray differential phase contrast imaging methods, including projection imaging and the corresponding computed tomography (CT), have been implemented using a Talbot interferometer and either a synchrotron beam line or a low brilliance x-ray source generated by a stationary-anode x-ray tube. From small-angle scattering events which occur as an x-ray propagates through a medium, a signal intensity loss can be recorded and analyzed for an understanding of the micro-structures in an image object. This has been demonstrated using a Talbot-Lau interferometer and a stationary-anode x-ray tube. In this paper, theoretical principles and an experimental implementation of the corresponding CT imaging method are presented. First, a line integral is derived from analyzing the cross section of the small-angle scattering events. This method is referred to as small-angle scattering computed tomography (SAS-CT). Next, a Talbot-Lau interferometer and a rotating-anode x-ray tube were used to implement SAS-CT. A physical phantom and human breast tissue sample were used to demonstrate the reconstructed SAS-CT image volumes. PMID:20588425

  2. Small-angle scattering computed tomography (SAS-CT) using a Talbot-Lau interferometerand a rotating anode x-ray tube:theory and experiments.

    PubMed

    Chen, Guang-Hong; Bevins, Nicholas; Zambelli, Joseph; Qi, Zhihua

    2010-06-01

    X-ray differential phase contrast imaging methods, including projection imaging and the corresponding computed tomography (CT), have been implemented using a Talbot interferometer and either a synchrotron beam line or a low brilliance x-ray source generated by a stationary-anode x-ray tube. From small-angle scattering events which occur as an x-ray propagates through a medium, a signal intensity loss can be recorded and analyzed for an understanding of the micro-structures in an image object. This has been demonstrated using a Talbot-Lau interferometer and a stationary-anode x-ray tube. In this paper, theoretical principles and an experimental implementation of the corresponding CT imaging method are presented. First, a line integral is derived from analyzing the cross section of the small-angle scattering events. This method is referred to as small-angle scattering computed tomography (SAS-CT). Next, a Talbot-Lau interferometer and a rotating-anode x-ray tube were used to implement SAS-CT. A physical phantom and human breast tissue sample were used to demonstrate the reconstructed SAS-CT image volumes.

  3. Temperature Assisted in-Situ Small Angle X-ray Scattering Analysis of Ph-POSS/PC Polymer Nanocomposite

    PubMed Central

    Yadav, Ramdayal; Naebe, Minoo; Wang, Xungai; Kandasubramanian, Balasubramanian

    2016-01-01

    Inorganic/organic nanofillers have been extensively exploited to impart thermal stability to polymer nanocomposite via various strategies that can endure structural changes when exposed a wide range of thermal environment during their application. In this abstraction, we have utilized temperature assisted in-situ small angle X-ray scattering (SAXS) to examine the structural orientation distribution of inorganic/organic nanofiller octa phenyl substituted polyhedral oligomeric silsesquioxane (Ph-POSS) in Polycarbonate (PC) matrix from ambient temperature to 180 °C. A constant interval of 30 °C with the heating rate of 3 °C/min was utilized to guise the temperature below and above the glass transition temperature of PC followed by thermal gravimetric, HRTEM, FESEM and hydrophobic analysis at ambient temperature. The HRTEM images of Ph-POSS nano unit demonstrated hyperrectangular structure, while FESEM image of the developed nano composite rendered separated phase containing flocculated and overlapped stacking of POSS units in the PC matrix. The phase separation in polymer nanocomposite was further substantiated by thermodynamic interaction parameter (χ) and mixing energy (Emix) gleaned via Accelrys Materials studio. The SAXS spectra has demonstrated duplex peak at higher scattering vector region, postulated as a primary and secondary segregated POSS domain and followed by abundance of secondary peak with temperature augmentation. PMID:27436152

  4. Collagen fibril alignment and deformation during tensile strain of leather: a small-angle X-ray scattering study.

    PubMed

    Basil-Jones, Melissa M; Edmonds, Richard L; Norris, Gillian E; Haverkamp, Richard G

    2012-02-01

    The distribution and effect of applied strain on the collagen fibrils that make up leather may have an important bearing on the ultimate strength and other physical properties of the material. While sections of ovine and bovine leather were being subjected to tensile strain up to rupture, synchrotron-based small-angle X-ray scattering (SAXS) spectra were recorded edge-on to the leather at points from the corium to the grain. Measurements of both fibril orientation and collagen d spacing showed that, initially, the fibers reorient under strain, becoming more aligned. As the strain increases (5-10% strain), further fibril reorientation diminishes until, at 37% strain, the d spacing increases by up to 0.56%, indicating that significant tensile forces are being transmitted to individual fibrils. These changes, however, are not uniform through the cross-section of leather and differ between leathers of different strengths. The stresses are taken up more evenly through the leather cross-section in stronger leathers in comparison to weaker leathers, where stresses tended to be concentrated during strain. These observations contribute to our understanding of the internal strains and structural changes that take place in leather under stress.

  5. Determination by Small-angle X-ray Scattering of Pore Size Distribution in Nanoporous Track-etched Polycarbonate Membranes

    NASA Astrophysics Data System (ADS)

    Jonas, A. M.; Legras, R.; Ferain, E.

    1998-03-01

    Nanoporous track-etched membranes with narrow pore size distributions and average pore size diameters tunable from 100 to 1000 Åare produced by the chemical etching of latent tracks in polymer films after irradiation by a beam of accelerated heavy ions. Nanoporous membranes are used for highly demanding filtration purposes, or as templates to obtain metallic or polymeric nanowires (L. Piraux et al., Nucl. Instr. Meth. Phys. Res. 1997, B131, 357). Such applications call for developments in nanopore size characterization techniques. In this respect, we report on the characterization by small-angle X-ray scattering (SAXS) of nanopore size distribution (nPSD) in polycarbonate track-etched membranes. The obtention of nPSD requires inverting an ill-conditioned inhomogeneous equation. We present different numerical routes to overcome the amplification of experimental errors in the resulting solutions, including a regularization technique allowing to obtain the nPSD without a priori knowledge of its shape. The effect of deviations from cylindrical pore shape on the resulting distributions are analyzed. Finally, SAXS results are compared to results obtained by electron microscopy and conductometry.

  6. Idiosyncratically tuned switching behavior of riboswitch aptamer domains revealed by comparative small-angle X-ray scattering analysis

    SciTech Connect

    Baird, Nathan J.; Ferré-D'Amaré, Adrian R.

    2010-05-25

    Riboswitches are structured mRNA elements that regulate gene expression upon binding specific cellular metabolites. It is thought that the highly conserved metabolite-binding domains of riboswitches undergo conformational change upon binding their cognate ligands. To investigate the generality of such a mechanism, we employed small-angle X-ray scattering (SAXS). We probed the nature of the global metabolite-induced response of the metabolite-binding domains of four different riboswitches that bind, respectively, thiamine pyrophosphate (TPP), flavin mononucleotide (FMN), lysine, and S-adenosyl methionine (SAM). We find that each RNA is unique in its global structural response to metabolite. Whereas some RNAs exhibit distinct free and bound conformations, others are globally insensitive to the presence of metabolite. Thus, a global conformational change of the metabolite-binding domain is not a requirement for riboswitch function. It is possible that the range of behaviors observed by SAXS, rather than being a biophysical idiosyncrasy, reflects adaptation of riboswitches to the regulatory requirements of their individual genomic context.

  7. Mass-fractal growth in niobia/silsesquioxane mixtures: a small-angle X-ray scattering study

    PubMed Central

    Besselink, Rogier; ten Elshof, Johan E.

    2014-01-01

    The nucleation and growth of niobium pentaethoxide (NPE)-derived clusters in ethanol, through acid-catalyzed hydrolysis/condensation in the presence and absence of the silsesquioxane 1,2-bis(triethoxysilyl)ethane (BTESE), was monitored at 298–333 K by small-angle X-ray scattering. The data were analyzed with a newly derived model for polydisperse mass-fractal-like structures. At 298–313 K in the absence of BTESE the data indicated the development of relatively monodisperse NPE-derived structures with self-preserving polydispersity during growth. The growth exponent was consistent with irreversible diffusion-limited cluster agglomeration. At 333 K the growth exponent was characteristic for fast-gelling reaction-limited cluster agglomeration. The reaction yielded substantially higher degrees of polydispersity. In the presence of BTESE the growth exponents were substantially smaller. The smaller growth exponent in this case is not consistent with irreversible Smoluchowski-type agglomeration. Instead, reversible Lifshitz–Slyozov-type agglomeration seems to be more consistent with the experimental data. PMID:25294980

  8. Asymmetric grazing incidence small angle x-ray scattering and anisotropic domain wall motion in obliquely grown nanocrystalline Co films.

    PubMed

    Quirós, C; Peverini, L; Díaz, J; Alija, A; Blanco, C; Vélez, M; Robach, O; Ziegler, E; Alameda, J M

    2014-08-22

    Strong asymmetries have been observed in grazing incidence small angle x-ray scattering (GISAXS) in situ patterns obtained from 30 nm-thick nanocrystalline Co films prepared by oblique sputtering (15°-75° off-sample normal). These asymmetries have been qualitatively simulated by a simple model consisting of an ensemble of 8 nm-wide inclined Co nanocolumns. It is found that narrow inclined features appear in the diffuse background resembling those characteristic of faceted systems, which can be used to obtain straightforward non-destructive estimations of buried nanocolumnar grains inclination, even for oblique angles below 45°, when the stronger and broader asymmetric features of the pattern are not yet fully formed. Furthermore, using magneto-optical microscopy, a marked change in the magnetic domain's nucleation and growth process has been observed in the sample prepared at 75°, with the stronger GISAXS asymmetries. Easy axis magnetization reversal starts by a random and homogeneous nucleation of small (∼μm) elongated domains aligned with the nanocolumn's long axis and proceeds through the preferred propagation of head-to-head domain walls (DWs) along the applied field direction. This peculiar magnetic behavior indicates that the strongly anisotropic nanostructuring created by the oblique growth process is equivalent, from a magnetic point of view, to an array of self-assembled buried nanowires. These results show how GISAXS and magneto-optical microscopy can be combined as a powerful tool for correlating the morphology and magnetism of thin nanostructured systems.

  9. Small angle X-ray scattering studies of CTNNBL1 dimerization and CTNNBL1/CDC5L complex

    PubMed Central

    Ahn, Jae-Woo; Sik Jin, Kyeong; Francis Son, Hyeoncheol; Ho Chang, Jeong; Kim, Kyung-Jin

    2015-01-01

    The hPrp19/CDC5L complex is a non-snRNP spliceosome complex that plays a key role in the spliceosome activation during pre-mRNA splicing, and CTNNBL1 and CDC5L are essential components of the complex. In this study, to investigate the oligomeric state of CTNNBL1 in solution, we performed small angle X-ray scattering experiments in various concentrations of NaCl. We observed that CTNNBL1 existed as a dimer in physiological NaCl concentrations. Site-directed mutagenesis experiment of CTNNBL1 confirmed that N-terminal capping region and the first four ARM repeats are important for dimerization of the protein. We also found that the positively-charged NLS3-containing region (residues 197–235) of CDC5L bound to the negatively-charged patch of CTNNBL1 and that the CTNNBL1/CDC5L complex formed a heterotetramer consisting of one CTNNBL1 dimer and one CDC5L dimer. Moreover, reconstruction of 3D models of CTNNBL1/CDC5L complexes containing CTNNBL1 and three different truncated forms of CDC5L showed that the CDC5L141–196 region and the CDC5L236–377 region were positioned at the top of the N-terminal capping region and at the bottom of ARM VII of CTNNBL1, respectively. PMID:26381213

  10. Temperature Assisted in-Situ Small Angle X-ray Scattering Analysis of Ph-POSS/PC Polymer Nanocomposite

    NASA Astrophysics Data System (ADS)

    Yadav, Ramdayal; Naebe, Minoo; Wang, Xungai; Kandasubramanian, Balasubramanian

    2016-07-01

    Inorganic/organic nanofillers have been extensively exploited to impart thermal stability to polymer nanocomposite via various strategies that can endure structural changes when exposed a wide range of thermal environment during their application. In this abstraction, we have utilized temperature assisted in-situ small angle X-ray scattering (SAXS) to examine the structural orientation distribution of inorganic/organic nanofiller octa phenyl substituted polyhedral oligomeric silsesquioxane (Ph-POSS) in Polycarbonate (PC) matrix from ambient temperature to 180 °C. A constant interval of 30 °C with the heating rate of 3 °C/min was utilized to guise the temperature below and above the glass transition temperature of PC followed by thermal gravimetric, HRTEM, FESEM and hydrophobic analysis at ambient temperature. The HRTEM images of Ph-POSS nano unit demonstrated hyperrectangular structure, while FESEM image of the developed nano composite rendered separated phase containing flocculated and overlapped stacking of POSS units in the PC matrix. The phase separation in polymer nanocomposite was further substantiated by thermodynamic interaction parameter (χ) and mixing energy (Emix) gleaned via Accelrys Materials studio. The SAXS spectra has demonstrated duplex peak at higher scattering vector region, postulated as a primary and secondary segregated POSS domain and followed by abundance of secondary peak with temperature augmentation.

  11. Probing Anisotropic Structure Changes in Proteins with Picosecond Time-Resolved Small Angle X-ray Scattering

    PubMed Central

    Cho, Hyun Sun; Schotte, Friedrich; Dashdorj, Naranbaatar; Kyndt, John; Anfinrud, Philip A.

    2014-01-01

    We have exploited the principle of photoselection and the method of time-resolved Small Angle X-ray Scattering (SAXS) to investigate protein size and shape changes following photoactivation of photoactive yellow protein (PYP) in solution with ~150 ps time resolution. This study partially overcomes the orientational average intrinsic to solution scattering methods, and provides structural information at a higher level of detail. Photoactivation of the p-coumaric acid (pCA) chromophore in PYP produces a highly-contorted, short-lived, red shifted intermediate (pR0), and triggers prompt, protein compaction of approximately 0.3% along the direction defined by the electronic transition dipole moment of the chromophore. Contraction along this dimension is accompanied by expansion along the orthogonal directions, with the net protein volume change being approximately -0.25%. More than half the strain arising from formation of pR0 is relieved by the pR0 to pR1 structure transition (1.8 ± 0.2 ns), with the persistent strain presumably contributing to the driving force needed to generate the spectroscopically blue-shifted pB signaling state. The results reported here are consistent with the near-atomic resolution structural dynamics reported in a recent time-resolved Laue crystallography study of PYP crystals, and suggest that the early-time structural dynamics in the crystalline state carry over to proteins in solution. PMID:24125473

  12. ``Ordered'' structure in dilute solutions of biopolymers as studied by small-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Matsuoka, Hideki; Ise, Norio; Okubo, Tsuneo; Kunugi, Shigeru; Tomiyama, Hiroshi; Yoshikawa, Yukihiro

    1985-07-01

    Dilute aqueous solutions of bovine serum albumin, lysozyme, chondroitin sulfate, and tRNA were measured by small-angle x-ray scattering. The scattering curves showed a single, broad peak as was observed for synthetic polyelectrolytes, indicating the presence of an ordered distribution of charged solutes. The intermolecular distance evaluated from the peak position (2Dexpt) increased with decreasing polymer concentration and with increasing salt concentration. Except for chondroitin sulfate, 2Dexpt values were nearly equal to the interparticle distance (2D0) calculated based on the assumption of a uniform distribution. The observed relationship between 2Dexpt and 2D0 was in agreement with the proposal that intermacroion attraction is weak for low-charge density particles under discussion. This attraction and repulsive interparticle interaction create a ``secondary'' minimum in the potential curve enabling ordering to take place. For tRNA, the scattering peak became lower with rising temperature. The fact that only a single, broad peak could be observed was rationalized by invoking the concept of distortions of ordering particles such as the paracrystallinity, and the thermal motion and the crystalline size effect. The correlation hole theory based on repulsive interaction is critically discussed, particularly in light of the experimental fact that the peak position of albumin shifts toward wider angles with increasing number of charges.

  13. Investigation of a catalyst ink dispersion using both ultra-small-angle X-ray scattering and cryogenic TEM.

    PubMed

    Xu, Fan; Zhang, HangYu; Ilavsky, Jan; Stanciu, Lia; Ho, Derek; Justice, Matthew J; Petrache, Horia I; Xie, Jian

    2010-12-21

    The dispersion of Nafion ionomer particles and Pt/C catalyst aggregates in liquid media was studied using both ultra-small-angle X-ray scattering (USAXS) and cryogenic TEM. A systematic approach was taken to study first the dispersion of each component (i.e., ionomer particles and Pt/C aggregates), then the combination of the components, and last the catalyst ink. Multiple-level curve fitting was used to extract the particle size, size distribution, and geometry of the Pt/C aggregates and the Nafion particles in liquid media from the scattering data. The results suggest that the particle size, size distribution, and geometry are not uniform throughout the systems but rather vary significantly. It was found that the interaction of each component (i.e., the Nafion ionomer particles and the Pt/C aggregates) occurs in the dispersion. Cryogenic TEM was used to observe the size and geometry of the particles in liquid directly and to validate the scattering results. The TEM results showed excellent agreement.

  14. Review of the fundamental theories behind small angle X-ray scattering, molecular dynamics simulations, and relevant integrated application

    PubMed Central

    Boldon, Lauren; Laliberte, Fallon; Liu, Li

    2015-01-01

    In this paper, the fundamental concepts and equations necessary for performing small angle X-ray scattering (SAXS) experiments, molecular dynamics (MD) simulations, and MD-SAXS analyses were reviewed. Furthermore, several key biological and non-biological applications for SAXS, MD, and MD-SAXS are presented in this review; however, this article does not cover all possible applications. SAXS is an experimental technique used for the analysis of a wide variety of biological and non-biological structures. SAXS utilizes spherical averaging to produce one- or two-dimensional intensity profiles, from which structural data may be extracted. MD simulation is a computer simulation technique that is used to model complex biological and non-biological systems at the atomic level. MD simulations apply classical Newtonian mechanics’ equations of motion to perform force calculations and to predict the theoretical physical properties of the system. This review presents several applications that highlight the ability of both SAXS and MD to study protein folding and function in addition to non-biological applications, such as the study of mechanical, electrical, and structural properties of non-biological nanoparticles. Lastly, the potential benefits of combining SAXS and MD simulations for the study of both biological and non-biological systems are demonstrated through the presentation of several examples that combine the two techniques. PMID:25721341

  15. An analysis of FtsZ assembly using small angle X-ray scattering and electron microscopy.

    PubMed

    Kuchibhatla, Anuradha; Abdul Rasheed, A S; Narayanan, Janaky; Bellare, Jayesh; Panda, Dulal

    2009-04-01

    Small angle X-ray scattering (SAXS) was used for the first time to study the self-assembly of the bacterial cell division protein, FtsZ, with three different additives: calcium chloride, monosodium glutamate and DEAE-dextran hydrochloride in solution. The SAXS data were analyzed assuming a model form factor and also by a model-independent analysis using the pair distance distribution function. Transmission electron microscopy (TEM) was used for direct observation of the FtsZ filaments. By sectioning and negative staining with glow discharged grids, very high bundling as well as low bundling polymers were observed under different assembly conditions. FtsZ polymers formed different structures in the presence of different additives and these additives were found to increase the bundling of FtsZ protofilaments by different mechanisms. The combined use of SAXS and TEM provided us a significant insight of the assembly of FtsZ and microstructures of the assembled FtsZ polymers.

  16. Temperature Assisted in-Situ Small Angle X-ray Scattering Analysis of Ph-POSS/PC Polymer Nanocomposite.

    PubMed

    Yadav, Ramdayal; Naebe, Minoo; Wang, Xungai; Kandasubramanian, Balasubramanian

    2016-01-01

    Inorganic/organic nanofillers have been extensively exploited to impart thermal stability to polymer nanocomposite via various strategies that can endure structural changes when exposed a wide range of thermal environment during their application. In this abstraction, we have utilized temperature assisted in-situ small angle X-ray scattering (SAXS) to examine the structural orientation distribution of inorganic/organic nanofiller octa phenyl substituted polyhedral oligomeric silsesquioxane (Ph-POSS) in Polycarbonate (PC) matrix from ambient temperature to 180 °C. A constant interval of 30 °C with the heating rate of 3 °C/min was utilized to guise the temperature below and above the glass transition temperature of PC followed by thermal gravimetric, HRTEM, FESEM and hydrophobic analysis at ambient temperature. The HRTEM images of Ph-POSS nano unit demonstrated hyperrectangular structure, while FESEM image of the developed nano composite rendered separated phase containing flocculated and overlapped stacking of POSS units in the PC matrix. The phase separation in polymer nanocomposite was further substantiated by thermodynamic interaction parameter (χ) and mixing energy (Emix) gleaned via Accelrys Materials studio. The SAXS spectra has demonstrated duplex peak at higher scattering vector region, postulated as a primary and secondary segregated POSS domain and followed by abundance of secondary peak with temperature augmentation. PMID:27436152

  17. Small Angle X-ray and Neutron Scattering: Powerful Tools for Studying the Structure of Drug-Loaded Liposomes

    PubMed Central

    Di Cola, Emanuela; Grillo, Isabelle; Ristori, Sandra

    2016-01-01

    Nanovectors, such as liposomes, micelles and lipid nanoparticles, are recognized as efficient platforms for delivering therapeutic agents, especially those with low solubility in water. Besides being safe and non-toxic, drug carriers with improved performance should meet the requirements of (i) appropriate size and shape and (ii) cargo upload/release with unmodified properties. Structural issues are of primary importance to control the mechanism of action of loaded vectors. Overall properties, such as mean diameter and surface charge, can be obtained using bench instruments (Dynamic Light Scattering and Zeta potential). However, techniques with higher space and time resolution are needed for in-depth structural characterization. Small-angle X-ray (SAXS) and neutron (SANS) scattering techniques provide information at the nanoscale and have therefore been largely used to investigate nanovectors loaded with drugs or other biologically relevant molecules. Here we revise recent applications of these complementary scattering techniques in the field of drug delivery in pharmaceutics and medicine with a focus to liposomal carriers. In particular, we highlight those aspects that can be more commonly accessed by the interested users. PMID:27043614

  18. The Structure of Urease Activiation Complexes Examined by Flexibility Analysis, Mutagenesis, and Small-angle X-ray Scattering Approaches

    SciTech Connect

    Quiroz, Soledad; Sukuru, Sai Chetan K.; Hausinger, Robert P.; Kuhn, Leslie A.; Heller, William T

    2008-01-01

    Conformational changes of Klebsiella aerogenes urease apoprotein (UreABC){sub 3} induced upon binding of the UreD and UreF accessory proteins were examined by a combination of flexibility analysis, mutagenesis, and small-angle X-ray scattering (SAXS). ProFlex analysis of urease provided evidence that the major domain of UreB can move in a hinge-like motion to account for prior chemical cross-linking results. Rigidification of the UreB hinge region, accomplished through a G11P mutation, reduced the extent of urease activation, in part by decreasing the nickel content of the mutant enzyme, and by sequestering a portion of the urease apoprotein in a novel activation complex that includes all of the accessory proteins. SAXS analyses of urease, (UreABC-UreD){sub 3}, and (UreABC-UreDF){sub 3} confirm that UreD and UreF bind near UreB at the periphery of the (UreAC){sub 3} structure. This study supports an activation model in which a domain-shifted UreB conformation in (UreABC-UreDF){sub 3} allows CO{sub 2} and nickel ions to gain access to the nascent active site.

  19. Small angle x-ray diffraction through living muscle links the lattice structure to macroscopic material properties

    NASA Astrophysics Data System (ADS)

    Tune, Travis; Irving, Tom; Sponberg, Simon

    Muscle is a unique hierarchical material composed of millions of molecular motors arranged on filaments in a regular lattice structure. The macroscopic, material behavior of muscle can be characterized by its workloop, a periodically activated force-length curve. Muscle is capable of operating as a spring, motor, brake, or strut, defined by its workloop. We are interested in the multiscale physics of muscle that drive its ``energetic versatility'' - the ability of muscle to alter its function. Here we introduce a system of two muscles from the cockroach whose workloops are not explained by our current understanding of the determinants of workloop function (the classic force-length, force-velocity, and twitch response). Differences in material behavior may arise from structural differences in the muscle's active lattice. Using the BIOCat beam at the Advanced Photon Source at Argonne NL, we tested for differences in the two muscles' lattice structure. Small-angle x-ray scattering (SAXS) revealed a difference of 4-8

  20. Poisson's ratio of collagen fibrils measured by small angle X-ray scattering of strained bovine pericardium

    SciTech Connect

    Wells, Hannah C.; Sizeland, Katie H.; Kayed, Hanan R.; Haverkamp, Richard G.; Kirby, Nigel; Hawley, Adrian; Mudie, Stephen T.

    2015-01-28

    Type I collagen is the main structural component of skin, tendons, and skin products, such as leather. Understanding the mechanical performance of collagen fibrils is important for understanding the mechanical performance of the tissues that they make up, while the mechanical properties of bulk tissue are well characterized, less is known about the mechanical behavior of individual collagen fibrils. In this study, bovine pericardium is subjected to strain while small angle X-ray scattering (SAXS) patterns are recorded using synchrotron radiation. The change in d-spacing, which is a measure of fibril extension, and the change in fibril diameter are determined from SAXS. The tissue is strained 0.25 (25%) with a corresponding strain in the collagen fibrils of 0.045 observed. The ratio of collagen fibril width contraction to length extension, or the Poisson's ratio, is 2.1 ± 0.7 for a tissue strain from 0 to 0.25. This Poisson's ratio indicates that the volume of individual collagen fibrils decreases with increasing strain, which is quite unlike most engineering materials. This high Poisson's ratio of individual fibrils may contribute to high Poisson's ratio observed for tissues, contributing to some of the remarkable properties of collagen-based materials.

  1. Poisson's ratio of collagen fibrils measured by small angle X-ray scattering of strained bovine pericardium

    NASA Astrophysics Data System (ADS)

    Wells, Hannah C.; Sizeland, Katie H.; Kayed, Hanan R.; Kirby, Nigel; Hawley, Adrian; Mudie, Stephen T.; Haverkamp, Richard G.

    2015-01-01

    Type I collagen is the main structural component of skin, tendons, and skin products, such as leather. Understanding the mechanical performance of collagen fibrils is important for understanding the mechanical performance of the tissues that they make up, while the mechanical properties of bulk tissue are well characterized, less is known about the mechanical behavior of individual collagen fibrils. In this study, bovine pericardium is subjected to strain while small angle X-ray scattering (SAXS) patterns are recorded using synchrotron radiation. The change in d-spacing, which is a measure of fibril extension, and the change in fibril diameter are determined from SAXS. The tissue is strained 0.25 (25%) with a corresponding strain in the collagen fibrils of 0.045 observed. The ratio of collagen fibril width contraction to length extension, or the Poisson's ratio, is 2.1 ± 0.7 for a tissue strain from 0 to 0.25. This Poisson's ratio indicates that the volume of individual collagen fibrils decreases with increasing strain, which is quite unlike most engineering materials. This high Poisson's ratio of individual fibrils may contribute to high Poisson's ratio observed for tissues, contributing to some of the remarkable properties of collagen-based materials.

  2. Rod Packing in Chiral Nematic Cellulose Nanocrystal Dispersions Studied by Small-Angle X-ray Scattering and Laser Diffraction.

    PubMed

    Schütz, Christina; Agthe, Michael; Fall, Andreas B; Gordeyeva, Korneliya; Guccini, Valentina; Salajková, Michaela; Plivelic, Tomás S; Lagerwall, Jan P F; Salazar-Alvarez, German; Bergström, Lennart

    2015-06-16

    The packing of cellulose nanocrystals (CNC) in the anisotropic chiral nematic phase has been investigated over a wide concentration range by small-angle X-ray scattering (SAXS) and laser diffraction. The average separation distance between the CNCs and the average pitch of the chiral nematic phase have been determined over the entire isotropic-anisotropic biphasic region. The average separation distances range from 51 nm, at the onset of the anisotropic phase formation, to 25 nm above 6 vol % (fully liquid crystalline phase) whereas the average pitch varies from ≈15 μm down to ≈2 μm as ϕ increases from 2.5 up to 6.5 vol %. Using the cholesteric order, we determine that the twist angle between neighboring CNCs increases from about 1° up to 4° as ϕ increases from 2.5 up to 6.5 vol %. The dependence of the twisting on the volume fraction was related to the increase in the magnitude of the repulsive interactions between the charged rods as the average separation distance decreases.

  3. Early aggregation preceding the nucleation of insulin amyloid fibrils as monitored by small angle X-ray scattering

    PubMed Central

    Chatani, Eri; Inoue, Rintaro; Imamura, Hiroshi; Sugiyama, Masaaki; Kato, Minoru; Yamamoto, Masahide; Nishida, Koji; Kanaya, Toshiji

    2015-01-01

    The nucleation event of amyloid fibrils is one of the most crucial processes that dictate the timing and rate of the pathology of diseases; however, information regarding how protein molecules associate to produce fibril nuclei is currently limited. In order to explore this issue in more detail, we performed time-resolved small angle X-ray scattering (SAXS) measurements on insulin fibrillation, in combination with additional multidirectional analyses of thioflavin T fluorescence, FTIR spectroscopy, light scattering, and light transmittance, during the fibrillation process of bovine insulin. SAXS monitoring revealed that insulin molecules associated into rod-like prefibrillar aggregates in the very early stage of the reaction. After the formation of these early aggregates, they appeared to further coalesce mutually to form larger clusters, and the SAXS profiles subsequently showed the further time evolution of conformational development towards mature amyloid fibrils. Distinct types of structural units in terms of shape in a nano-scale order, cross-β content, and thioflavin T fluorescence intensity were observed in a manner that was dependent on the fibrillation pathways. These results suggest the presence of diverse substructures that characterize various fibrillation pathways, and eventually, manifest polymorphisms in mature amyloid fibrils. PMID:26503463

  4. Methods for analysis of size-exclusion chromatography–small-angle X-ray scattering and reconstruction of protein scattering

    PubMed Central

    Malaby, Andrew W.; Chakravarthy, Srinivas; Irving, Thomas C.; Kathuria, Sagar V.; Bilsel, Osman; Lambright, David G.

    2015-01-01

    Size-exclusion chromatography in line with small-angle X-ray scattering (SEC–SAXS) has emerged as an important method for investigation of heterogeneous and self-associating systems, but presents specific challenges for data processing including buffer subtraction and analysis of overlapping peaks. This paper presents novel methods based on singular value decomposition (SVD) and Guinier-optimized linear combination (LC) to facilitate analysis of SEC–SAXS data sets and high-quality reconstruction of protein scattering directly from peak regions. It is shown that Guinier-optimized buffer subtraction can reduce common subtraction artifacts and that Guinier-optimized linear combination of significant SVD basis components improves signal-to-noise and allows reconstruction of protein scattering, even in the absence of matching buffer regions. In test cases with conventional SAXS data sets for cytochrome c and SEC–SAXS data sets for the small GTPase Arf6 and the Arf GTPase exchange factors Grp1 and cytohesin-1, SVD–LC consistently provided higher quality reconstruction of protein scattering than either direct or Guinier-optimized buffer subtraction. These methods have been implemented in the context of a Python-extensible Mac OS X application known as Data Evaluation and Likelihood Analysis (DELA), which provides convenient tools for data-set selection, beam intensity normalization, SVD, and other relevant processing and analytical procedures, as well as automated Python scripts for common SAXS analyses and Guinier-optimized reconstruction of protein scattering. PMID:26306089

  5. Probing kinetics and dynamics of nanocomposites with grazing-incidence small-angle x-ray scattering.

    NASA Astrophysics Data System (ADS)

    Wang, Jin

    2009-03-01

    Synthesizing complex nanocomposites and superstructures is of great interest in all areas of materials science and involving biology, chemistry, physics and engineering applications such as the fabrication of novel electronic, magnetic, and photonic devices. Since the entire synthesis and assembly process can take place far from equilibrium conditions, a controlled process has to be guided by a thorough understanding of the kinetics and dynamics in the composites. This requires measurement of the structure in situ and in real time with subnanometer spatial resolution and millisecond to subsecond temporal resolution. As an increasingly important structural-characterization technique, grazing-incidence small-angle x-ray scattering (GISAXS) finds vast applications in the research of nanostructures and nanocomposites at surfaces and interfaces. Most significantly, as a complementary method to conventional surface-sensitive tools such as scanning probe microscopy and electron microscopy, GISAXS can be used in situ and in real time to monitor the formation of the nanostructure or nanocomposite, which makes it most suitable for studying the kinetics of nanoassembly processes. The GISAXS technique can also be an integral part of numerous research, for example, those involving kinetics of mesoscaled ordered block copolymer thin films, kinetics of sol-gel processes, quantum dots, nanoparticles in ultrathin films, and dynamics and phase transitions 2D nanocrystal superlattices. Here, I will focus on the applications of GISAXS in real-time structure characterization, the dynamics in polymer/nanoparticle nanocomposies, and the challenges to elucidate nanostructure formation in nanoscience and nanotechnology.

  6. Local structure of Ca(2+) induced hydrogels of alginate-oligoguluronate blends determined by small-angle-X-ray scattering.

    PubMed

    Yuguchi, Yoshiaki; Hasegawa, Ami; Padoł, Anna Maria; Draget, Kurt Ingar; Stokke, Bjørn Torger

    2016-11-01

    Short oligoguluronates, oligoG's, are reported to affect the ionotropic gelation of alginates both with respect to altered gelation kinetics and elastic properties of the resulting gels. The local structure of Ca(2+) induced changes in oligoguluronates and blends of oligoguluronates and alginates was determined by small angle X-ray scattering (SAXS). Calcium was introduced in the aqueous polysaccharide solutions by in situ release of Ca(2+) from Ca-EGTA. The scattering profiles of the Ca(2+)-induced structures in the alginate-oligoG blends were accounted for by a two-component broken rod-like model, also with an additional term representing structural inhomogeneity by a Debye-Bueche term. Adding oligoG to the alginate yields an increase in the largest cross-sectional radius in the region of fractional Ca(2+) saturation of α-l-GulA units from 0.5 to 1. The time-lapse characterization during the Ca-induced changes in the alginate-oligoG blends shows that oligoG delays the emergence of the more extensive laterally aggregated junction zones. PMID:27516301

  7. Local structure of Ca(2+) induced hydrogels of alginate-oligoguluronate blends determined by small-angle-X-ray scattering.

    PubMed

    Yuguchi, Yoshiaki; Hasegawa, Ami; Padoł, Anna Maria; Draget, Kurt Ingar; Stokke, Bjørn Torger

    2016-11-01

    Short oligoguluronates, oligoG's, are reported to affect the ionotropic gelation of alginates both with respect to altered gelation kinetics and elastic properties of the resulting gels. The local structure of Ca(2+) induced changes in oligoguluronates and blends of oligoguluronates and alginates was determined by small angle X-ray scattering (SAXS). Calcium was introduced in the aqueous polysaccharide solutions by in situ release of Ca(2+) from Ca-EGTA. The scattering profiles of the Ca(2+)-induced structures in the alginate-oligoG blends were accounted for by a two-component broken rod-like model, also with an additional term representing structural inhomogeneity by a Debye-Bueche term. Adding oligoG to the alginate yields an increase in the largest cross-sectional radius in the region of fractional Ca(2+) saturation of α-l-GulA units from 0.5 to 1. The time-lapse characterization during the Ca-induced changes in the alginate-oligoG blends shows that oligoG delays the emergence of the more extensive laterally aggregated junction zones.

  8. Distribution of Sulfur in Carbon/Sulfur Nanocomposites Analyzed by Small-Angle X-ray Scattering.

    PubMed

    Petzold, Albrecht; Juhl, Anika; Scholz, Jonas; Ufer, Boris; Goerigk, Günter; Fröba, Michael; Ballauff, Matthias; Mascotto, Simone

    2016-03-22

    The analysis of sulfur distribution in porous carbon/sulfur nanocomposites using small-angle X-ray scattering (SAXS) is presented. Ordered porous CMK-8 carbon was used as the host matrix and gradually filled with sulfur (20-50 wt %) via melt impregnation. Owing to the almost complete match between the electron densities of carbon and sulfur, the porous nanocomposites present in essence a two-phase system and the filling of the host material can be precisely followed by this method. The absolute scattering intensities normalized per unit of mass were corrected accounting for the scattering contribution of the turbostratic microstructure of carbon and amorphous sulfur. The analysis using the Porod parameter and the chord-length distribution (CLD) approach determined the specific surface areas and filling mechanism of the nanocomposite materials, respectively. Thus, SAXS provides comprehensive characterization of the sulfur distribution in porous carbon and valuable information for a deeper understanding of cathode materials of lithium-sulfur batteries. PMID:26915534

  9. Subsecond Morphological Changes in Nafion during Water Uptake Detected by Small-Angle X-ray Scattering

    SciTech Connect

    Kusoglu, Ahmet; Modestino, Miguel A.; Hexemer, Alexander; Segalman, Rachel A.; Weber, Adam Z.

    2011-11-09

    The ability of the Nafion membrane to absorb water rapidly and create a network of hydrated interconnected water domains provides this material with an unmatched ability to conduct ions through a chemically and mechanically robust membrane. The morphology and composition of these hydrated membranes significantly affects their transport properties and performance. This research demonstrates that differences in interfacial interactions between the membranes exposed to vapor or liquid water can cause significant changes in kinetics of water uptake. In situ small-angle X-ray scattering (SAXS) experiments captured the rapid swelling of the membrane in liquid water with a nanostructure rearrangement on the order of seconds. For membranes in contact with water vapor, morphological changes are four orders-of-magnitude slower than in liquid water, suggesting that interfacial resistance limits the penetration of water into the membrane. Furthermore, upon water absorption from liquid water, a structural rearrangement from a distribution of spherical and cylindrical domains to exclusively cylindrical-like domains is suggested. These differences in water-uptake kinetics and morphology provide a new perspective into Schroeder's paradox, which dictates a different water content for vapor- and liquid-equilibrated ionomers at unit activity. Lastly, the findings of this work provide critical insights into the fast kinetics of water absorption of the Nafion membrane, which can aid in the design of energy conversion devices that operate under frequent changes in environmental conditions.

  10. Measurement of Carbon Condensates Using Small-Angle X-ray Scattering During Detonation of High Explosives

    NASA Astrophysics Data System (ADS)

    Willey, Trevor; Bagge-Hansen, M.; Lauderbach, L.; Hodgin, R.; Bastea, S.; Fried, L.; Jones, A.; Hansen, D.; Benterou, J.; May, C.; van Buuren, T.; Graber, T.; Jensen, B.; Ilavsky, J.

    2015-06-01

    The lack of experimental validation for processes occurring at sub-micron length scales on time scales ranging from nanoseconds to microseconds hinders detonation model development. Particularly, quantification of late-time energy release requires measurement of carbon condensation kinetics behind detonation fronts. A new small-angle x-ray scattering (SAXS) end station has been developed for use at The Dynamic Compression Sector to observe carbon condensation during detonation. We started with hexanitrostilbene (HNS) due to its stability, ease of initiation, vacuum compatibility, and oxygen deficiency. The endstation and beamline demonstrate unprecedented fidelity; the first SAXS data contains a clear Guinier knee and power law slope, giving information about the size and morphology of the resultant carbon nanoparticles. HNS detonation produces particles with an Rg of 2.7 nm in less than 400 ns, and this size is constant over the next several microseconds. This result with HNS differs dramatically compared with previous pioneering work on RDX/TNT and TATB, where observations indicate significant particle growth (>50%) continues over several microseconds. The power-law slope is consistent with sp2 carbon. We have also begun to measure, and will present preliminary results on carbon condensates from Comp B, DNTF, and other explosives.

  11. Quantum size effect as evidenced by small-angle X-ray scattering of In{sub 2}O{sub 3} nanoparticles

    SciTech Connect

    Souza, E. C. C.; Rey, J. F. Q.; Muccillo, E. N. S.

    2009-01-29

    Indium oxide nanoparticles were synthesized by a surfactant-free room-temperature soft chemistry route. The medium particle size of the thermally treated gel was evaluated by X-ray diffraction experiments, nitrogen adsorption measurements, transmission electron microscopy observations and small-angle X-ray scattering using synchrotron radiation. The main results show the single-crystalline nature of the prepared nanoparticles with 8 nm in diameter. The photoluminescence emission spectrum at room-temperature shows a broad peak with onset at, approximately, 315 nm as a result of quantum size effect produced by a small population of nanoparticles with average size of about 2.8 nm as revealed by small-angle X-ray scattering.

  12. Small angle X-ray scattering coupled with in situ electromechanical probing of nanoparticle-based resistive strain gauges

    NASA Astrophysics Data System (ADS)

    Decorde, Nicolas; Sangeetha, Neralagatta M.; Viallet, Benoit; Viau, Guillaume; Grisolia, Jérémie; Coati, Alessandro; Vlad, Alina; Garreau, Yves; Ressier, Laurence

    2014-11-01

    A comprehensive study on the electromechanical behavior of nanoparticle-based resistive strain gauges in action through normal and grazing incidence small angle X-ray scattering (SAXS/GISAXS) investigations is presented. The strain gauges were fabricated from arrays of colloidal gold nanoparticle (NP) wires assembled on flexible polyethylene terephthalate and polyimide substrates by convective self-assembly. Microstructural changes (mean interparticle distance variations) within these NP wires under uniaxial stretching estimated by SAXS/GISAXS are correlated to their macroscopic electrical resistance variations. SAXS measurements suggest a linear longitudinal extension and transversal contraction of the NP wires with applied strain (0 to ~13%). The slope of this longitudinal variation is less than unity, implying a partial strain transfer from the substrate to the NP wires. The simultaneously measured electrical resistance of the strain gauges shows an exponential variation within the elastic domain of the substrate deformation, consistent with electron tunnelling through the interparticle gaps. A slower variation observed within the plastic domain suggests the formation of new electronic conduction pathways. Implications of transversal contraction of the NP wires on the directional sensitivities of strain gauges are evaluated by simulating electronic conduction in models mimicking a realistic NP arrangement. A loss of directionality of the NP-based strain gauges due to transversal current flow within the NP wires is deduced.A comprehensive study on the electromechanical behavior of nanoparticle-based resistive strain gauges in action through normal and grazing incidence small angle X-ray scattering (SAXS/GISAXS) investigations is presented. The strain gauges were fabricated from arrays of colloidal gold nanoparticle (NP) wires assembled on flexible polyethylene terephthalate and polyimide substrates by convective self-assembly. Microstructural changes (mean

  13. EXPRESSION, PURIFICATION, AND SMALL ANGLE X-RAY SCATTERING OF DNA REPLICATION AND REPAIR PROTEINS FROM THE HYPERTHERMOPHILE SULFOLOBUS SOLFATARICUS

    SciTech Connect

    Patterson, S.M.; Hatherill, J.R.; Hammel, M.; Hura, G.L.; Tainer, J.A.; Yannone, S.M.

    2008-01-01

    Vital molecular processes such as DNA replication, transcription, translation, and maintenance occur through transient protein interactions. Elucidating the mechanisms by which these protein complexes and interactions function could lead to treatments for diseases related to DNA damage and cell division control. In the recent decades since its introduction as a third domain, Archaea have shown to be simpler models for complicated eukaryotic processes such as DNA replication, repair, transcription, and translation. Sulfolobus solfataricus is one such model organism. A hyperthermophile with an optimal growth temperature of 80°C, Sulfolobus protein-protein complexes and transient protein interactions should be more stable at moderate temperatures, providing a means to isolate and study their structure and function. Here we provide the initial steps towards characterizing three DNA-related Sulfolobus proteins with small angle X-ray scattering (SAXS): Sso0257, a cell division control and origin recognition complex homolog, Sso0768, the small subunit of the replication factor C, and Sso3167, a Mut-T like protein. SAXS analysis was performed at multiple concentrations for both short and long exposure times. The Sso0257 sample was determined to be either a mixture of monomeric and dimeric states or a population of dynamic monomers in various conformational states in solution, consistent with a fl exible winged helix domain. Sso0768 was found to be a complex mixture of multimeric states in solution. Finally, molecular envelope reconstruction from SAXS data for Sso3167 revealed a novel structural component which may function as a disordered to ordered region in the presence of its substrates and/or protein partners.

  14. Measurement of carbon condensates using small-angle x-ray scattering during detonation of the high explosive hexanitrostilbene

    DOE PAGESBeta

    Bagge-Hansen, M.; Lauderbach, L.; Hodgin, R.; Bastea, S.; Fried, L.; Jones, A.; van Buuren, T.; Hansen, D.; Benterou, J.; May, C.; et al

    2015-06-24

    In this study, the dynamics of carbon condensation in detonating high explosives remains controversial. Detonation model validation requires data for processes occurring at nanometer length scales on time scales ranging from nanoseconds to microseconds. A new detonation end station has been commissioned to acquire and provide time-resolved small-angle x-ray scattering (SAXS) from detonating explosives. Hexanitrostilbene (HNS) was selected as the first to investigate due to its ease of initiation using exploding foils and flyers, vacuum compatibility, high thermal stability, and stoichiometric carbon abundance that produces high carbon condensate yields. The SAXS data during detonation, collected with 300 ns time resolution,more » provide unprecedented signal fidelity over a broad q-range. This fidelity permits the first analysis of both the Guinier and Porod/power-law regions of the scattering profile during detonation, which contains information about the size and morphology of the resultant carbon condensate nanoparticles. To bolster confidence in these data, the scattering angle and intensity were additionally cross-referenced with a separate, highly calibrated SAXS beamline. The data show that HNS produces carbon particles with a radius of gyration of 2.7 nm in less than 400 ns after the detonation front has passed, and this size and morphology are constant over the next several microseconds. These data directly contradict previous pioneering work on RDX/TNT mixtures and TATB, where observations indicate significant particle growth (50% or more) continues over several microseconds. The power-law slope is about -3, which is consistent with a complex disordered, irregular, or folded sp2 sub-arrangement within a relatively monodisperse structure possessing radius of gyration of 2.7 nm after the detonation of HNS.« less

  15. Prion Protein—Antibody Complexes Characterized by Chromatography-Coupled Small-Angle X-Ray Scattering

    PubMed Central

    Carter, Lester; Kim, Seung Joong; Schneidman-Duhovny, Dina; Stöhr, Jan; Poncet-Montange, Guillaume; Weiss, Thomas M.; Tsuruta, Hiro; Prusiner, Stanley B.; Sali, Andrej

    2015-01-01

    Aberrant self-assembly, induced by structural misfolding of the prion proteins, leads to a number of neurodegenerative disorders. In particular, misfolding of the mostly α-helical cellular prion protein (PrPC) into a β-sheet-rich disease-causing isoform (PrPSc) is the key molecular event in the formation of PrPSc aggregates. The molecular mechanisms underlying the PrPC-to-PrPSc conversion and subsequent aggregation remain to be elucidated. However, in persistently prion-infected cell-culture models, it was shown that treatment with monoclonal antibodies against defined regions of the prion protein (PrP) led to the clearing of PrPSc in cultured cells. To gain more insight into this process, we characterized PrP-antibody complexes in solution using a fast protein liquid chromatography coupled with small-angle x-ray scattering (FPLC-SAXS) procedure. High-quality SAXS data were collected for full-length recombinant mouse PrP [denoted recPrP(23–230)] and N-terminally truncated recPrP(89–230), as well as their complexes with each of two Fab fragments (HuM-P and HuM-R1), which recognize N- and C-terminal epitopes of PrP, respectively. In-line measurements by fast protein liquid chromatography coupled with SAXS minimized data artifacts caused by a non-monodispersed sample, allowing structural analysis of PrP alone and in complex with Fab antibodies. The resulting structural models suggest two mechanisms for how these Fabs may prevent the conversion of PrPC into PrPSc. PMID:26287631

  16. Structural properties of archaeal lipid bilayers: small-angle X-ray scattering and molecular dynamics simulation study.

    PubMed

    Polak, Andraž; Tarek, Mounir; Tomšič, Matija; Valant, Janez; Ulrih, Nataša Poklar; Jamnik, Andrej; Kramar, Peter; Miklavčič, Damijan

    2014-07-22

    Aeropyrum pernix is an aerobic hyperthermophilic archaeon that grows in harsh environmental conditions and as such possesses unique structural and metabolic features. Its membrane interfaces with the extreme environment and is the first line of defense from external factors. Therefore, lipids composing this membrane have special moieties that increase its stability. The membrane of A. pernix is composed predominantly of two polar lipids 2,3-di-O-sesterterpanyl-sn-glicerol-1-phospho-1'(2'-O-α-D-glucosyl)-myo-inositol (AGI) and 2,3-di-O-sesterterpanyl-sn-glicerol-1-phospho-myo-inositol (AI). Both have methyl branches in their lipid tails and ether linkages and carbohydrates in their headgroup. These moieties significantly affect the structure and dynamics of the bilayer. To provide a molecular level insight into these characteristics, we used here Molecular Dynamics (MD) simulations of lipid bilayers of composition similar to those of the archaeal membranes. First, we show that the electron density profiles along the normal to the bilayers derived from the simulations are in good agreement with the profiles obtained by the small-angle X-ray scattering (SAXS) technique, which provides confidence in the force fields used. Analyses of the simulation data show that the archaeal lipid bilayers are less hydrated than conventional phosphatidylcholine (PC) lipids and that their structure is not affected by the salt present in the surrounding solution. Furthermore, the lateral pressure in their hydrophobic core, due to the presence of the branched tails, is much higher than that at PC-based lipid bilayers. Both the methyl branched tails and the special headgroup moieties contribute to slow drastically the lateral diffusion of the lipids. Furthermore, we found that the lipid head groups associate via hydrogen bonding, which affects their reorientational dynamics. All together, our data provide links between the microscopic properties of these membranes and their overall

  17. Measurement of carbon condensation using small-angle x-ray scattering during detonation of the high explosive hexanitrostilbene

    SciTech Connect

    Bagge-Hansen, M.; Lauderbach, L. M.; Hodgin, R.; Bastea, S.; Fried, L.; Jones, A.; van Buuren, T.; Hansen, D.; Benterou, J.; May, C.; Graber, T.; Jensen, B. J.; Ilavsky, J.; Willey, T. M.

    2015-06-24

    The dynamics of carboncondensation in detonating high explosives remains controversial. Detonation model validation requires data for processes occurring at nanometer length scales on time scales ranging from nanoseconds to microseconds. A new detonation endstation has been commissioned to acquire and provide time-resolved small-angle x-ray scattering (SAXS) from detonating explosives. Hexanitrostilbene (HNS) was selected as the first to investigate due to its ease of initiation using exploding foils and flyers, vacuum compatibility, high thermal stability, and stoichiometric carbon abundance that produces high carbon condensate yields. The SAXS data during detonation, collected with 300 ns time resolution, provide unprecedented signal fidelity over a broad q-range. This fidelity permits the first analysis of both the Guinier and Porod/power-law regions of the scattering profile during detonation, which contains information about the size and morphology of the resultant carbon condensate nanoparticles. To bolster confidence in these data, the scattering angle and intensity were additionally cross-referenced with a separate, highly calibrated SAXS beamline. The data show that HNS produces carbon particles with a radius of gyration of 2.7 nm in less than 400 ns after the detonation front has passed, and this size and morphology are constant over the next several microseconds. These data directly contradict previous pioneering work on RDX/TNT mixtures and TATB, where observations indicate significant particle growth (50% or more) continues over several microseconds. As a result, the power-law slope is about –3, which is consistent with a complex disordered, irregular, or folded sp2 sub-arrangement within a relatively monodisperse structure possessing radius of gyration of 2.7 nm after the detonation of HNS.

  18. Studying nanostructure gradients in injection-molded polypropylene/montmorillonite composites by microbeam small-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Stribeck, Norbert; Schneider, Konrad; Zeinolebadi, Ahmad; Li, Xuke; Sanporean, Catalina-Gabriela; Vuluga, Zina; Iancu, Stela; Duldner, Monica; Santoro, Gonzalo; Roth, Stephan V.

    2014-02-01

    The core-shell structure in oriented cylindrical rods of polypropylene (PP) and nanoclay composites (NCs) from PP and montmorillonite (MMT) is studied by microbeam small-angle x-ray scattering (SAXS). The structure of neat PP is almost homogeneous across the rod showing regular semicrystalline stacks. In the NCs the discrete SAXS of arranged crystalline PP domains is limited to a skin zone of 300 μm thickness. Even there only frozen-in primary lamellae are detected. The core of the NCs is dominated by diffuse scattering from crystalline domains placed at random. The SAXS of the MMT flakes exhibits a complex skin-core gradient. Both the direction of the symmetry axis and the apparent perfection of flake-orientation are varying. Thus there is no local fiber symmetry, and the structure gradient cannot be reconstructed from a scan across the full rod. To overcome the problem the rods are machined. Scans across the residual webs are performed. For the first time webs have been carved out in two principal directions. Comparison of the corresponding two sets of SAXS patterns demonstrates the complexity of the MMT orientation. Close to the surface (< 1 mm) the flakes cling to the wall. The variation of the orientation distribution widths indicates the presence of both MMT flakes and grains. The grains have not been oriented in the flowing melt. An empirical equation is presented which describes the variation from skin to core of one component of the inclination angle of flake-shaped phyllosilicate filler particles.

  19. Small-angle x-ray scattering study of kinetics of spinodal decomposition in {ital N}-isopropylacrylamide gels

    SciTech Connect

    Liao, G.; Xie, Y.; Ludwig, K.F. Jr.; Bansil, R.; Gallagher, P.; Xie, Y.; Gallagher, P.

    1999-10-01

    We present synchrotron-based time-resolved small-angle x-ray scattering (SAXS) measurements of spinodal decomposition in a covalently cross-linked N-isopropylacrylamide gel. The range of wave numbers examined is well beyond the position of the maximum in the structure factor S(q,t). The equilibrium structure factor is described by the sum of a Lorentzian and a Gaussian. Following a temperature jump into the two phase region, the scattered intensity increases with time and eventually saturates. For early times the linear Cahn-Hilliard-Cook (CHC) theory can be used to describe the time evolution of the scattered intensity. From this analysis we found that the growth rate R(q) is linearly dependent on q{sup 2}, in agreement with mean-field theoretical predictions. However the Onsager transport coefficient {Lambda}(q){approximately}q{sup {minus}4}, which is stronger than the {ital q} dependence predicted by the mean-field theory. We found that the growth rate R(q){gt}0, even though the wave numbers {ital q} probed by SAXS are greater than {radical} (2) q{sub m} where q{sub m} is the position of the peak of S(q,t), also in agreement with the mean-field predictions for a deep quench. We have also examined the range of validity of the linear CHC theory, and found that its breakdown occurs earlier at higher wave numbers. At later times, a pinning of the structure was observed. The relaxation to a final, microphase-separated morphology is faster and occurs earlier at the highest wave numbers, which probe length scales comparable to the average distance between crosslinks. {copyright} {ital 1999} {ital The American Physical Society}

  20. Measurement of carbon condensates using small-angle x-ray scattering during detonation of the high explosive hexanitrostilbene

    SciTech Connect

    Bagge-Hansen, M.; Lauderbach, L.; Hodgin, R.; Bastea, S.; Fried, L.; Jones, A.; van Buuren, T.; Hansen, D.; Benterou, J.; May, C.; Graber, T.; Jensen, B. J.; Ilavsky, J.; Willey, T. M.

    2015-06-24

    In this study, the dynamics of carbon condensation in detonating high explosives remains controversial. Detonation model validation requires data for processes occurring at nanometer length scales on time scales ranging from nanoseconds to microseconds. A new detonation end station has been commissioned to acquire and provide time-resolved small-angle x-ray scattering (SAXS) from detonating explosives. Hexanitrostilbene (HNS) was selected as the first to investigate due to its ease of initiation using exploding foils and flyers, vacuum compatibility, high thermal stability, and stoichiometric carbon abundance that produces high carbon condensate yields. The SAXS data during detonation, collected with 300 ns time resolution, provide unprecedented signal fidelity over a broad q-range. This fidelity permits the first analysis of both the Guinier and Porod/power-law regions of the scattering profile during detonation, which contains information about the size and morphology of the resultant carbon condensate nanoparticles. To bolster confidence in these data, the scattering angle and intensity were additionally cross-referenced with a separate, highly calibrated SAXS beamline. The data show that HNS produces carbon particles with a radius of gyration of 2.7 nm in less than 400 ns after the detonation front has passed, and this size and morphology are constant over the next several microseconds. These data directly contradict previous pioneering work on RDX/TNT mixtures and TATB, where observations indicate significant particle growth (50% or more) continues over several microseconds. The power-law slope is about -3, which is consistent with a complex disordered, irregular, or folded sp2 sub-arrangement within a relatively monodisperse structure possessing radius of gyration of 2.7 nm after the detonation of HNS.

  1. Measurement of carbon condensates using small-angle x-ray scattering during detonation of the high explosive hexanitrostilbene

    SciTech Connect

    Bagge-Hansen, M.; Lauderbach, L.; Hodgin, R.; Bastea, S.; Fried, L.; Jones, A.; Buuren, T. van; Hansen, D.; Benterou, J.; May, C.; Willey, T. M.; Graber, T.; Jensen, B. J.; Ilavsky, J.

    2015-06-28

    The dynamics of carbon condensation in detonating high explosives remains controversial. Detonation model validation requires data for processes occurring at nanometer length scales on time scales ranging from nanoseconds to microseconds. A new detonation endstation has been commissioned to acquire and provide time-resolved small-angle x-ray scattering (SAXS) from detonating explosives. Hexanitrostilbene (HNS) was selected as the first to investigate due to its ease of initiation using exploding foils and flyers, vacuum compatibility, high thermal stability, and stoichiometric carbon abundance that produces high carbon condensate yields. The SAXS data during detonation, collected with 300 ns time resolution, provide unprecedented signal fidelity over a broad q-range. This fidelity permits the first analysis of both the Guinier and Porod/power-law regions of the scattering profile during detonation, which contains information about the size and morphology of the resultant carbon condensate nanoparticles. To bolster confidence in these data, the scattering angle and intensity were additionally cross-referenced with a separate, highly calibrated SAXS beamline. The data show that HNS produces carbon particles with a radius of gyration of 2.7 nm in less than 400 ns after the detonation front has passed, and this size and morphology are constant over the next several microseconds. These data directly contradict previous pioneering work on RDX/TNT mixtures and TATB, where observations indicate significant particle growth (50% or more) continues over several microseconds. The power-law slope is about −3, which is consistent with a complex disordered, irregular, or folded sp{sup 2} sub-arrangement within a relatively monodisperse structure possessing radius of gyration of 2.7 nm after the detonation of HNS.

  2. Tertiary and quaternary structural differences between two genetic variants of bovine casein by small-angle X-ray scattering

    SciTech Connect

    Pessen, H.; Kumosinski, T.F.; Farrell, H.M. Jr.; Brumberger, H. )

    1991-01-01

    The casein complexes of bovine milk consist of four major protein fractions, alpha s1, alpha s2, beta, and kappa. Colloidal particles of casein (termed micelles) contain inorganic calcium and phosphate; they are very roughly spherical with an average radius of 650 A. Removal of Ca2+ leads to the formation of smaller protein aggregates with an average radius of 94 A. Two genetic variants, A and B, of the predominant fraction, alpha s1-casein, result in milks with markedly different physical properties, such as solubility and heat stability. To investigate the molecular basis for these differences, small-angle X-ray scattering was performed on the respective colloidal micelles and submicelles. Scattering curves for submicelles of both variants showed multiple Gaussian character; data for the B variant were previously interpreted in terms of two concentric regions of different electron density, i.e., a compact core and a relatively loose shell. For the submicelle of A, there was a third Gaussian, reflecting a negative contribution due to interparticle interference. Molecular parameters for submicelles of both A and B are in agreement with hydrodynamic data in the literature. Data for the micelles, for which scattering yields cross-sectional information, were fitted by a sum of three Gaussians for both variants; for these, the corresponding two lower radii of gyration represent the two concentric regions of the submicelles, while the third reflects the average packing of submicelles within the micellar cross section. Most of the molecular parameters obtained showed small but consistent differences between A and B, but for submicelles within the micelle several differences were particularly notable: A has a greater molecular weight for the compact region of the constituent submicelle (82,000 vs 60,000) and a much greater submicellar packing number.

  3. Ca2+-induced structural changes in phosphorylase kinase detected by small-angle X-ray scattering.

    PubMed

    Priddy, Timothy S; MacDonald, Brian A; Heller, William T; Nadeau, Owen W; Trewhella, Jill; Carlson, Gerald M

    2005-04-01

    Phosphorylase kinase (PhK), a 1.3-MDa (alphabetagammadelta)(4) hexadecameric complex, is a Ca(2+)-dependent regulatory enzyme in the cascade activation of glycogenolysis. PhK comprises two arched (alphabetagammadelta)(2) octameric lobes that are oriented back-to-back with overall D(2) symmetry and joined by connecting bridges. From chemical cross-linking and electron microscopy, it is known that the binding of Ca(2+) by PhK perturbs the structure of all its subunits and promotes redistribution of density throughout both its lobes and bridges; however, little is known concerning the interrelationship of these effects. To measure structural changes induced by Ca(2+) in the PhK complex in solution, small-angle X-ray scattering was performed on nonactivated and Ca(2+)-activated PhK. Although the overall dimensions of the complex were not affected by Ca(2+), the cation did promote a shift in the distribution of the scattering density within the hydrated volume occupied by the PhK molecule, indicating a Ca(2+)-induced conformational change. Computer-generated models, based on elements of the known structure of PhK from electron microscopy, were constructed to aid in the interpretation of the scattering data. Models containing two ellipsoids and four cylinders to represent, respectively, the lobes and bridges of the PhK complex provided theoretical scattering profiles that accurately fit the experimental data. Structural differences between the models representing the nonactivated and Ca(2+)-activated conformers of PhK are consistent with Ca(2+)-induced conformational changes in both the lobes and the interlobal bridges.

  4. Ca2+-induced structural changes in phosphorylase kinase detected by small-angle x-ray scattering

    SciTech Connect

    Priddy, Timothy S.; Macdonald, Brian A.; Heller, William T; Nadeau, Owen W.; Trewhella, Jill; Carlson, Gerald M.

    2005-01-01

    Phosphorylase kinase (PhK), a 1.3-MDa ({alpha}{beta}{gamma}{delta}){sub 4} hexadecameric complex, is a Ca{sup 2+}-dependent regulatory enzyme in the cascade activation of glycogenolysis. PhK comprises two arched ({alpha}{beta}{gamma}{delta}){sub 2} octameric lobes that are oriented back-to-back with overall D{sub 2} symmetry and joined by connecting bridges. From chemical cross-linking and electron microscopy, it is known that the binding of Ca{sup 2+} by PhK perturbs the structure of all its subunits and promotes redistribution of density throughout both its lobes and bridges; however, little is known concerning the interrelationship of these effects. To measure structural changes induced by Ca{sup 2+} in the PhK complex in solution, small-angle X-ray scattering was performed on nonactivated and Ca{sup 2+}-activated PhK. Although the overall dimensions of the complex were not affected by Ca{sup 2+}, the cation did promote a shift in the distribution of the scattering density within the hydrated volume occupied by the PhK molecule, indicating a Ca{sup 2+}-induced conformational change. Computer-generated models, based on elements of the known structure of PhK from electron microscopy, were constructed to aid in the interpretation of the scattering data. Models containing two ellipsoids and four cylinders to represent, respectively, the lobes and bridges of the PhK complex provided theoretical scattering profiles that accurately fit the experimental data. Structural differences between the models representing the nonactivated and Ca{sup 2+}-activated conformers of PhK are consistent with Ca{sup 2+}-induced conformational changes in both the lobes and the interlobal bridges.

  5. Measurement of carbon condensates using small-angle x-ray scattering during detonation of the high explosive hexanitrostilbene

    NASA Astrophysics Data System (ADS)

    Bagge-Hansen, M.; Lauderbach, L.; Hodgin, R.; Bastea, S.; Fried, L.; Jones, A.; van Buuren, T.; Hansen, D.; Benterou, J.; May, C.; Graber, T.; Jensen, B. J.; Ilavsky, J.; Willey, T. M.

    2015-06-01

    The dynamics of carbon condensation in detonating high explosives remains controversial. Detonation model validation requires data for processes occurring at nanometer length scales on time scales ranging from nanoseconds to microseconds. A new detonation endstation has been commissioned to acquire and provide time-resolved small-angle x-ray scattering (SAXS) from detonating explosives. Hexanitrostilbene (HNS) was selected as the first to investigate due to its ease of initiation using exploding foils and flyers, vacuum compatibility, high thermal stability, and stoichiometric carbon abundance that produces high carbon condensate yields. The SAXS data during detonation, collected with 300 ns time resolution, provide unprecedented signal fidelity over a broad q-range. This fidelity permits the first analysis of both the Guinier and Porod/power-law regions of the scattering profile during detonation, which contains information about the size and morphology of the resultant carbon condensate nanoparticles. To bolster confidence in these data, the scattering angle and intensity were additionally cross-referenced with a separate, highly calibrated SAXS beamline. The data show that HNS produces carbon particles with a radius of gyration of 2.7 nm in less than 400 ns after the detonation front has passed, and this size and morphology are constant over the next several microseconds. These data directly contradict previous pioneering work on RDX/TNT mixtures and TATB, where observations indicate significant particle growth (50% or more) continues over several microseconds. The power-law slope is about -3, which is consistent with a complex disordered, irregular, or folded sp2 sub-arrangement within a relatively monodisperse structure possessing radius of gyration of 2.7 nm after the detonation of HNS.

  6. Ultra-small-angle X-ray scattering study of second- phase particles in heat-treated Zircaloy-4

    SciTech Connect

    Srirangam, Prakash; Idrees, Yasir; Ilavsky, Jan; Daymond, Mark R.

    2015-01-01

    The ultra-small-angle X-ray scattering (USAXS) technique has been used to investigate and to quantify the morphology and size distribution of secondphase particles in Zircaloy-4 under various heat-treatment conditions. The alloy samples were solutionized in the phase field at 1293 K for 15 min and then cooled at different rates, including water quenching, air cooling and furnace cooling. The water-quenched samples were subsequently subjected to a thermal aging treatment at 873 K for different aging times (30, 60, 120 and 300 min). The USAXS results show that water quenching and air cooling from the phase field produces a narrow size distribution of fine-size precipitates with an average diameter of 300–800 A ° , while furnace cooling resulted in coarsening of the particles, with a broad size distribution having an average precipitate size of 600–1200 A ° . Further, the furnace-cooled sample shows a higher volume fraction of particles than the water-quenched or air-cooled sample. The USAXS results on the quenched then aged samples show that aging at 873 K for 10 min resulted in very fine size precipitates with an average diameter of 200–350 A ° . A rapid precipitation with the highest number density of second-phase particles amongst all the heat-treated samples (4.3 1020 m3) was observed in the sample aged for 10 min at 873 K. Particles of larger size and with a broad size distribution were observed in the sample aged at 873 K for 300 min. A bimodal type of particle size distribution was observed in all the heat-treated samples. Important parameters in the characterization of second-phase particles, such as the average size, size distribution, volume fraction and number density, were evaluated and quantified. These parameters are discussed for both heat-treated and aged specimens. Transmission and scanning transmission electron microscopy characterization were carried out on all heat-treated samples, to assist in interpretation and to substantiate the

  7. Small-Angle X-Ray Scattering of the Cholesterol Incorporation into Human ApoA1-POPC Discoidal Particles

    PubMed Central

    Midtgaard, Søren Roi; Pedersen, Martin Cramer; Arleth, Lise

    2015-01-01

    Structural and functional aspects of high-density lipoproteins have been studied for over half a century. Due to the plasticity of this highly complex system, new aspects continue to be discovered. Here, we present a structural study of the human Apolipoprotein A1 (ApoA1) and investigate the role of its N-terminal domain, the so-called globular domain of ApoA1, in discoidal complexes with phospholipids and increasing amounts of cholesterol. Using a combination of solution-based small-angle x-ray scattering (SAXS) and molecular constrained data modeling, we show that the ApoA1-1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC)-based particles are disk shaped with an elliptical cross section and composed by a central lipid bilayer surrounded by two stabilizing ApoA1 proteins. This structure is very similar to the particles formed in the so-called nanodisc system, which is based on N-terminal truncated ApoA1 protein. Although it is commonly agreed that the nanodisc is plain disk shaped, several more advanced structures have been proposed for the full-length ApoA1 in combination with POPC and cholesterol. This prompted us to make a detailed comparative study of the ApoA1 and nanodisc systems upon cholesterol uptake. Based on the presented SAXS analysis it is found that the N-terminal domains of ApoA1-POPC-cholesterol particles are not globular but instead an integrated part of the protein belt stabilizing the particles. Upon incorporation of increasing amounts of cholesterol, the presence of the N-terminal domain allows the bilayer thickness to increase while maintaining an overall flat bilayer structure. This is contrasted by the energetically more strained and less favorable lens shape required to fit the SAXS data from the N-terminal truncated nanodisc system upon cholesterol incorporation. This suggests that the N-terminal domain of ApoA1 actively participates in the stabilization of the ApoA1-POPC-cholesterol discoidal particle and allows for a more optimal

  8. Small Angle X-ray Scattering Study of Palladium Nanoparticle Growth on Genetically Engineered Tobacco Mosaic Virus Nanotemplates

    NASA Astrophysics Data System (ADS)

    Manocchi, Amy K.

    Transition metal nanoparticles possess valuable specific size dependent properties that arise at the nanoscale, and differ significantly from their bulk properties. However, the fabrication of these nanoparticles is often difficult to predict and control due to harsh reaction conditions and effects of capping agents or surfactants. Therefore, there is a critical need for facile routes toward controllable nanoparticle fabrication. Biological supramolecules, such as viruses, offer attractive templates for nanoparticle synthesis, due to their precise size and shape. In addition, simple genetic modifications can be employed to confer additional functionality with a high number of precisely spaced functional groups. In this work we exploit the specificity of genetically modified Tobacco Mosaic Virus (TMV1cys) for readily controllable palladium (Pd) nanoparticle synthesis via simple electroless deposition. TMV1cys, engineered to display one cysteine residue on the surface of each of over 2000 identical coat proteins, provides high density precisely spaced thiol groups for the preferential nucleation and growth of Pd nanoparticles. Small-Angle X-ray Scattering (SAXS) was employed to provide a statistically meaningful route to the investigation of Pd nanoparticle size ranges formed on the viral-nanotemplates. Specifically, we examine the size range and thermal stability of Pd nanoparticles formed on surface assembled TMV1cys. Further, we investigate the growth of Pd nanoparticles on TMV1cys in solution using in situ SAXS to better understand and predict nanoparticle growth on these nanotemplates. Lastly, we compare TMV1cys templated particle growth to Pd nanoparticle growth in the absence of TMV1cys to elucidate the role of TMV in particle formation. We show that Pd nanoparticles form preferentially on surface assembled TMV1cys in high density in a broad particle size range (4-18nm). Further, we show that Pd nanoparticles are significantly smaller and more uniform when

  9. Small angle X-ray scattering as a high-throughput method to classify antimicrobial modes of action.

    PubMed

    von Gundlach, A R; Garamus, V M; Gorniak, T; Davies, H A; Reischl, M; Mikut, R; Hilpert, K; Rosenhahn, A

    2016-05-01

    Multi-drug resistant bacteria are currently undermining our health care system worldwide. While novel antimicrobial drugs, such as antimicrobial peptides, are urgently needed, identification of new modes of action is money and time consuming, and in addition current approaches are not available in a high throughput manner. Here we explore how small angle X-ray scattering (SAXS) as high throughput method can contribute to classify the mode of action for novel antimicrobials and therefore supports fast decision making in drug development. Using data bases for natural occurring antimicrobial peptides or predicting novel artificial peptides, many candidates can be discovered that will kill a selected target bacterium. However, in order to narrow down the selection it is important to know if these peptides follow all the same mode of action. In addition, the mode of action should be different from conventional antibiotics, in consequence peptide candidates can be developed further into drugs against multi-drug resistant bacteria. Here we used one short antimicrobial peptide with unknown mode of action and compared the ultrastructural changes of Escherichia coli cells after treatment with the peptide to cells treated with classic antibiotics. The key finding is that SAXS as a structure sensitive tool provides a rapid feedback on drug induced ultrastructural alterations in whole E. coli cells. We could demonstrate that ultrastructural changes depend on the used antibiotics and their specific mode of action. This is demonstrated using several well characterized antimicrobial compounds and the analysis of resulting SAXS curves by principal component analysis. To understand the result of the PCA analysis, the data is correlated with TEM images. In contrast to real space imaging techniques, SAXS allows to obtain nanoscale information averaged over approximately one million cells. The measurement takes only seconds, while conventional tests to identify a mode of action require

  10. Study of the gel films of Acetobacter Xylinum cellulose and its modified samples by {sup 1}H NMR cryoporometry and small-angle X-ray scattering

    SciTech Connect

    Babushkina, T. A.; Klimova, T. P.; Shtykova, E. V.; Dembo, K. A.; Volkov, V. V.; Khripunov, A. K.; Klechkovskaya, V. V.

    2010-03-15

    Gel films of Acetobacter Xylinum cellulose and its modified samples have been investigated by 1H nuclear magnetic resonance (NMR) cryoporometry and small-angle X-ray scattering. The joint use of these two methods made it possible to characterize the sizes of aqueous pores in gel films and estimate the sizes of structural inhomogeneities before and after the sorption of polyvinylpyrrolidone and Se{sub 0} nanoparticles (stabilized by polyvinylpyrrolidone) into the films. According to small-angle X-ray scattering data, the sizes of inhomogeneities in a gel film change only slightly upon the sorption of polyvinylpyrrolidone and nanoparticles. The impregnated material is sorbed into water-filled cavities that are present in the gel film. {sup 1}H NMR cryoporometry allowed us to reveal the details of changes in the sizes of small aqueous pores during modifications.

  11. Period clustering of anomalous X-ray pulsars

    NASA Astrophysics Data System (ADS)

    Bisnovatyi-Kogan, G. S.; Ikhsanov, N. R.

    2015-06-01

    The question of why the observed periods of anomalous X-ray pulsars (AXPs) and soft gamma-ray repeaters (SGRs) cluster in the range 2-12 s is discussed. The possibility that AXPs and SGRs are the descendants of high-mass X-ray binaries that have disintegrated in core-collapse supernova explosions is investigated. The spin periods of neutron stars in high-mass X-ray binaries evolve towards the equilibrium period, which is a few seconds, on average. After the explosion of its massive companion, the neutron star becomes embedded in a dense gaseous envelope, and accretion from this envelope leads to the formation of a residual magnetically levitating disk. It is shown that the expected mass of the disk in this case is 10-7-10-8 M⊙, which is sufficient to support accretion at the rate 1014-1015 g/s over a few thousand years. During this period, the star manifests itself as an isolated X-ray pulsar with a number of parameters similar to those of AXPs and SGRs. The periods of such pulsars can cluster if the lifetime of the residual disk does not exceed the spin-down timescale of the neutron star.

  12. Architecture of a Full-length Retroviral Integrase Monomer and Dimer, Revealed by Small Angle X-ray Scattering and Chemical Cross-linking

    SciTech Connect

    Bojja, Ravi S.; Andrake, Mark D.; Weigand, Steven; Merkel, George; Yarychkivska, Olya; Henderson, Adam; Kummerling, Marissa; Skalka, Anna Marie

    2012-02-07

    We determined the size and shape of full-length avian sarcoma virus (ASV) integrase (IN) monomers and dimers in solution using small angle x-ray scattering. The low resolution data obtained establish constraints for the relative arrangements of the three component domains in both forms. Domain organization within the small angle x-ray envelopes was determined by combining available atomic resolution data for individual domains with results from cross-linking coupled with mass spectrometry. The full-length dimer architecture so revealed is unequivocally different from that proposed from x-ray crystallographic analyses of two-domain fragments, in which interactions between the catalytic core domains play a prominent role. Core-core interactions are detected only in cross-linked IN tetramers and are required for concerted integration. The solution dimer is stabilized by C-terminal domain (CTD-CTD) interactions and by interactions of the N-terminal domain in one subunit with the core and CTD in the second subunit. These results suggest a pathway for formation of functional IN-DNA complexes that has not previously been considered and possible strategies for preventing such assembly.

  13. Small-angle X-ray Scattering of Apolipoprotein A-IV Reveals the Importance of Its Termini for Structural Stability*

    PubMed Central

    Deng, Xiaodi; Morris, Jamie; Chaton, Catherine; Schröder, Gunnar F.; Davidson, W. Sean; Thompson, Thomas B.

    2013-01-01

    ApoA-IV is an amphipathic protein that can emulsify lipids and has been linked to protective roles against cardiovascular disease and obesity. We previously reported an x-ray crystal structure of apoA-IV that was truncated at its N and C termini. Here, we have extended this work by demonstrating that self-associated states of apoA-IV are stable and can be structurally studied using small-angle x-ray scattering. Both the full-length monomeric and dimeric forms of apoA-IV were examined, with the dimer showing an elongated rod core with two nodes at opposing ends. The monomer is roughly half the length of the dimer with a single node. Small-angle x-ray scattering visualization of several deletion mutants revealed that removal of both termini can have substantial conformational effects throughout the molecule. Additionally, the F334A point mutation, which we previously showed increases apoA-IV lipid binding, also exhibited large conformational effects on the entire dimer. Merging this study's low-resolution structural information with the crystal structure provides insight on the conformation of apoA-IV as a monomer and as a dimer and further defines that a clasp mechanism may control lipid binding and, ultimately, protein function. PMID:23288849

  14. Beyond simple small-angle X-ray scattering: developments in online complementary techniques and sample environments

    PubMed Central

    Bras, Wim; Koizumi, Satoshi; Terrill, Nicholas J

    2014-01-01

    Small- and wide-angle X-ray scattering (SAXS, WAXS) are standard tools in materials research. The simultaneous measurement of SAXS and WAXS data in time-resolved studies has gained popularity due to the complementary information obtained. Furthermore, the combination of these data with non X-ray based techniques, via either simultaneous or independent measurements, has advanced understanding of the driving forces that lead to the structures and morphologies of materials, which in turn give rise to their properties. The simultaneous measurement of different data regimes and types, using either X-rays or neutrons, and the desire to control parameters that initiate and control structural changes have led to greater demands on sample environments. Examples of developments in technique combinations and sample environment design are discussed, together with a brief speculation about promising future developments. PMID:25485128

  15. Beyond simple small-angle X-ray scattering: developments in online complementary techniques and sample environments.

    PubMed

    Bras, Wim; Koizumi, Satoshi; Terrill, Nicholas J

    2014-11-01

    Small- and wide-angle X-ray scattering (SAXS, WAXS) are standard tools in materials research. The simultaneous measurement of SAXS and WAXS data in time-resolved studies has gained popularity due to the complementary information obtained. Furthermore, the combination of these data with non X-ray based techniques, via either simultaneous or independent measurements, has advanced understanding of the driving forces that lead to the structures and morphologies of materials, which in turn give rise to their properties. The simultaneous measurement of different data regimes and types, using either X-rays or neutrons, and the desire to control parameters that initiate and control structural changes have led to greater demands on sample environments. Examples of developments in technique combinations and sample environment design are discussed, together with a brief speculation about promising future developments.

  16. GENFIT: software for the analysis of small-angle X-ray and neutron scattering data of macro­molecules in solution

    PubMed Central

    Spinozzi, Francesco; Ferrero, Claudio; Ortore, Maria Grazia; De Maria Antolinos, Alejandro; Mariani, Paolo

    2014-01-01

    Many research topics in the fields of condensed matter and the life sciences are based on small-angle X-ray and neutron scattering techniques. With the current rapid progress in source brilliance and detector technology, high data fluxes of ever-increasing quality are produced. In order to exploit such a huge quantity of data and richness of information, wider and more sophisticated approaches to data analysis are needed. Presented here is GENFIT, a new software tool able to fit small-angle scattering data of randomly oriented macromolecular or nanosized systems according to a wide list of models, including form and structure factors. Batches of curves can be analysed simultaneously in terms of common fitting parameters or by expressing the model parameters via physical or phenomenological link functions. The models can also be combined, enabling the user to describe complex heterogeneous systems. PMID:24904247

  17. GENFIT: software for the analysis of small-angle X-ray and neutron scattering data of macro-molecules in solution.

    PubMed

    Spinozzi, Francesco; Ferrero, Claudio; Ortore, Maria Grazia; De Maria Antolinos, Alejandro; Mariani, Paolo

    2014-06-01

    Many research topics in the fields of condensed matter and the life sciences are based on small-angle X-ray and neutron scattering techniques. With the current rapid progress in source brilliance and detector technology, high data fluxes of ever-increasing quality are produced. In order to exploit such a huge quantity of data and richness of information, wider and more sophisticated approaches to data analysis are needed. Presented here is GENFIT, a new software tool able to fit small-angle scattering data of randomly oriented macromolecular or nanosized systems according to a wide list of models, including form and structure factors. Batches of curves can be analysed simultaneously in terms of common fitting parameters or by expressing the model parameters via physical or phenomenological link functions. The models can also be combined, enabling the user to describe complex heterogeneous systems.

  18. Structural characterization of the N-terminal part of the MERS-CoV nucleocapsid by X-ray diffraction and small-angle X-ray scattering.

    PubMed

    Papageorgiou, Nicolas; Lichière, Julie; Baklouti, Amal; Ferron, François; Sévajol, Marion; Canard, Bruno; Coutard, Bruno

    2016-02-01

    The N protein of coronaviruses is a multifunctional protein that is organized into several domains. The N-terminal part is composed of an intrinsically disordered region (IDR) followed by a structured domain called the N-terminal domain (NTD). In this study, the structure determination of the N-terminal region of the MERS-CoV N protein via X-ray diffraction measurements is reported at a resolution of 2.4 Å. Since the first 30 amino acids were not resolved by X-ray diffraction, the structural study was completed by a SAXS experiment to propose a structural model including the IDR. This model presents the N-terminal region of the MERS-CoV as a monomer that displays structural features in common with other coronavirus NTDs. PMID:26894667

  19. Salt Dependence of the Radius of Gyration and Flexibility of Single-stranded DNA in Solution probed by Small-angle X-ray Scattering

    SciTech Connect

    Sim, Adelene Y.L.; Lipfert, Jan; Herschlag, Daniel; Doniach, Sebastian

    2012-07-06

    Short single-stranded nucleic acids are ubiquitous in biological processes and understanding their physical properties provides insights to nucleic acid folding and dynamics. We used small angle x-ray scattering to study 8-100 residue homopolymeric single-stranded DNAs in solution, without external forces or labeling probes. Poly-T's structural ensemble changes with increasing ionic strength in a manner consistent with a polyelectrolyte persistence length theory that accounts for molecular flexibility. For any number of residues, poly-A is consistently more elongated than poly-T, likely due to the tendency of A residues to form stronger base-stacking interactions than T residues.

  20. Use of dynamic light scattering and small-angle X-ray scattering to characterize new surfactants in solution conditions for membrane-protein crystallization.

    PubMed

    Dahani, Mohamed; Barret, Laurie Anne; Raynal, Simon; Jungas, Colette; Pernot, Pétra; Polidori, Ange; Bonneté, Françoise

    2015-07-01

    The structural and interactive properties of two novel hemifluorinated surfactants, F2H9-β-M and F4H5-β-M, the syntheses of which were based on the structure and hydrophobicity of the well known dodecyl-β-maltoside (DD-β-M), are described. The shape of their micellar assemblies was characterized by small-angle X-ray scattering and their intermicellar interactions in crystallizing conditions were measured by dynamic light scattering. Such information is essential for surfactant phase-diagram determination and membrane-protein crystallization.

  1. Precision Timing of Two Anomalous X-Ray Pulsars.

    PubMed

    Kaspi; Chakrabarty; Steinberger

    1999-11-01

    We report on long-term X-ray timing of two anomalous X-ray pulsars, 1RXS J170849.0-400910 and 1E 2259+586, using the Rossi X-Ray Timing Explorer. In monthly observations made over 1.4 and 2.6 yr for the two pulsars, respectively, we have obtained phase-coherent timing solutions which imply that these objects have been rotating with great stability throughout the course of our observations. For 1RXS J170849.0-400910, we find a rotation frequency of 0.0909169331(5) Hz and frequency derivative -15.687&parl0;4&parr0;x10-14 Hz s-1 for epoch MJD 51215.931. For 1E 2259+586, we find a rotation frequency of 0.1432880613(2) Hz and frequency derivative -1.0026&parl0;7&parr0;x10-14 Hz s-1 for epoch MJD 51195.583. The rms phase residuals from these simple models are only approximately 0.01 cycles for both sources. We show that the frequency derivative for 1E 2259+586 is inconsistent with that inferred from incoherent frequency observations made over the last 20 yr. Our observations are consistent with the magnetar hypothesis and make binary accretion scenarios appear unlikely.

  2. Detection of short range order in SiO2 thin-films by grazing-incidence wide and small-angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Nagata, Kohki; Ogura, Atsushi; Hirosawa, Ichiro; Suwa, Tomoyuki; Teramoto, Akinobu; Ohmi, Tadahiro

    2016-04-01

    The effects of the fabrication process conditions on the microstructure of silicon dioxide thin films of <10 nm thickness are presented. The microstructure was investigated using grazing-incidence wide and small-angle X-ray scattering methods with synchrotron radiation. The combination of a high brilliance light source and grazing incident configuration enabled the observation of very weak diffuse X-ray scattering from SiO2 thin films. The results revealed different microstructures, which were dependent on oxidizing species or temperature. The micro-level properties differed from bulk properties reported in the previous literature. It was indicated that these differences originate from inner stress. The detailed structure in an amorphous thin film was not revealed owing to detection difficulties.

  3. Large multimeric assemblies of nucleosome assembly protein and histones revealed by small-angle X-ray scattering and electron microscopy.

    PubMed

    Newman, Emily R; Kneale, G Geoff; Ravelli, Raimond B G; Karuppasamy, Manikandan; Karimi Nejadasl, Fatemeh; Taylor, Ian A; McGeehan, John E

    2012-08-01

    The nucleosome assembly protein (NAP) family represents a key group of histone chaperones that are essential for cell viability. Several x-ray structures of NAP1 dimers are available; however, there are currently no structures of this ubiquitous chaperone in complex with histones. We have characterized NAP1 from Xenopus laevis and reveal that it forms discrete multimers with histones H2A/H2B and H3/H4 at a stoichiometry of one NAP dimer to one histone fold dimer. These complexes have been characterized by size exclusion chromatography, analytical ultracentrifugation, multiangle laser light scattering, and small-angle x-ray scattering to reveal their oligomeric assembly states in solution. By employing single-particle cryo-electron microscopy, we visualized these complexes for the first time and show that they form heterogeneous ring-like structures, potentially acting as large scaffolds for histone assembly and exchange. PMID:22707715

  4. Multiaxial deformation of polyethylene and polyethylene/clay nanocomposites: In situ synchrotron small angle and wide angle X-ray scattering study

    SciTech Connect

    Gurun, Bilge; Bucknall, David G.; Thio, Yonathan S.; Teoh, Chin Ching; Harkin-Jones, Eileen

    2013-01-10

    A unique in situ multiaxial deformation device has been designed and built specifically for simultaneous synchrotron small angle X-ray scattering (SAXS) and wide angle X-ray scattering (WAXS) measurements. SAXS and WAXS patterns of high-density polyethylene (HDPE) and HDPE/clay nanocomposites were measured in real time during in situ multiaxial deformation at room temperature and at 55 C. It was observed that the morphological evolution of polyethylene is affected by the existence of clay platelets as well as the deformation temperature and strain rate. Martensitic transformation of orthorhombic into monoclinic crystal phases was observed under strain in HDPE, which is delayed and hindered in the presence of clay nanoplatelets. From the SAXS measurements, it was observed that the thickness of the interlamellar amorphous region increased with increasing strain, which is due to elongation of the amorphous chains. The increase in amorphous layer thickness is slightly higher for the nanocomposites compared to the neat polymer.

  5. SASSIM: a method for calculating small-angle X-ray and neutron scattering and the associated molecular envelope from explicit-atom models of solvated proteins.

    PubMed

    Merzel, Franci; Smith, Jeremy C

    2002-02-01

    A method is presented to calculate efficiently small-angle neutron and X-ray solution scattering intensities from explicit-atom models of macromolecules and the surrounding solvent. The method is based on a multipole expansion of the scattering amplitude. It is particularly appropriate for extensive configurational averaging, as is required for calculations based on computer-simulation results. In test calculations, excellent agreement with experiment is found between neutron and X-ray scattering profiles calculated from a molecular-dynamics simulation of lysozyme in water. The question of definition of the protein surface is also addressed. For comparison with the continuum model, an analytical envelope around the protein is defined in terms of spherical harmonics and is calculated using a Lebedev grid. The analytical surface thus defined is shown to reproduce well the scattering profile calculated from the explicit-atom model of the protein.

  6. Bridging the solution divide: comprehensive structural analyses of dynamic RNA, DNA, and protein assemblies by small angle X-ray scattering

    PubMed Central

    Rambo, Robert P.; Tainer, John A.

    2010-01-01

    Summary Small-Angle X-ray Scattering (SAXS) is changing how we perceive biological structures, because it reveals dynamic macromolecular conformations and assemblies in solution. SAXS information captures thermodynamic ensembles, enhances static structures detailed by high-resolution methods, uncovers commonalities among diverse macromolecules, and helps define biological mechanisms. SAXS-based experiments on RNA riboswitches and ribozymes and on DNA-protein complexes including DNA-PK and p53 discover flexibilities that better define structure-function relationships. Furthermore, SAXS results suggest conformational variation is a general functional feature of macromolecules. Thus, accurate structural analyses will require a comprehensive approach that assesses both flexibility, as seen by SAXS, and detail, as determined by X-ray crystallography and NMR. Here, we review recent SAXS computational tools, technologies, and applications to nucleic acids and related structures. PMID:20097063

  7. Gas gain operations with single photon resolution using an integrating ionization chamber in small-angle X-ray scattering experiments

    NASA Astrophysics Data System (ADS)

    Menk, R. H.; Sarvestani, A.; Besch, H. J.; Walenta, A. H.; Amenitsch, H.; Bernstorff, S.

    2000-01-01

    In this work a combination of an ionization chamber with one-dimensional spatial resolution and a MicroCAT structure will be presented. Initially, MicroCAT was thought of as a shielding grid (Frisch-grid) but later was used as an active electron amplification device that enables single X-ray photon resolution measurements at low fluxes even with integrating readout electronics. Moreover, the adjustable gas gain that continuously covers the entire range from pure ionization chamber mode up to high gas gains (30 000 and more) provides stable operation yielding a huge dynamic range of about 10 8 and more. First measurements on biological samples using small angle X-ray scattering techniques with synchrotron radiation will be presented.

  8. A point-focusing small angle x-ray scattering camera using a doubly curved monochromator of a W/Si multilayer

    NASA Astrophysics Data System (ADS)

    Sasanuma, Yuji; Law, Robert V.; Kobayashi, Yuji

    1996-03-01

    A point-focusing small angle x-ray scattering (SAXS) camera using a doubly curved monochromator of a W/Si multilayer has been designed, constructed, and tested. The two radii of curvature of the monochromator are 20 400 and 7.6 mm. The reflectivity of its first-order Bragg reflection for CuKα radiation was calculated to be 0.82, being comparable to that (0.81) of its total reflection. By only 10 s x-ray exposure, scattering from a high-density polyethylene film was detected on an imaging plate (IP). A rotating-anode x-ray generator operated at 40 kV and 30 mA was used. Diffraction from rat-tail collagen has shown that the optical arrangement gives the Bragg spacing up to, at least, 30 nm for CuKα radiation. Combined with IPs, the camera may permit us to carry out time-resolved SAXS measurements for phase behaviors of liquid crystals, lipids, polymer alloys, etc., on conventional x-ray generators available in laboratories.

  9. A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering

    PubMed Central

    Benecke, Gunthard; Wagermaier, Wolfgang; Li, Chenghao; Schwartzkopf, Matthias; Flucke, Gero; Hoerth, Rebecca; Zizak, Ivo; Burghammer, Manfred; Metwalli, Ezzeldin; Müller-Buschbaum, Peter; Trebbin, Martin; Förster, Stephan; Paris, Oskar; Roth, Stephan V.; Fratzl, Peter

    2014-01-01

    X-ray scattering experiments at synchrotron sources are characterized by large and constantly increasing amounts of data. The great number of files generated during a synchrotron experiment is often a limiting factor in the analysis of the data, since appropriate software is rarely available to perform fast and tailored data processing. Furthermore, it is often necessary to perform online data reduction and analysis during the experiment in order to interactively optimize experimental design. This article presents an open-source software package developed to process large amounts of data from synchrotron scattering experiments. These data reduction processes involve calibration and correction of raw data, one- or two-dimensional integration, as well as fitting and further analysis of the data, including the extraction of certain parameters. The software, DPDAK (directly programmable data analysis kit), is based on a plug-in structure and allows individual extension in accordance with the requirements of the user. The article demonstrates the use of DPDAK for on- and offline analysis of scanning small-angle X-ray scattering (SAXS) data on biological samples and microfluidic systems, as well as for a comprehensive analysis of grazing-incidence SAXS data. In addition to a comparison with existing software packages, the structure of DPDAK and the possibilities and limitations are discussed. PMID:25294982

  10. Structural characterization of the phospholipid stabilizer layer at the solid-liquid interface of dispersed triglyceride nanocrystals with small-angle x-ray and neutron scattering

    NASA Astrophysics Data System (ADS)

    Schmiele, Martin; Schindler, Torben; Unruh, Tobias; Busch, Sebastian; Morhenn, Humphrey; Westermann, Martin; Steiniger, Frank; Radulescu, Aurel; Lindner, Peter; Schweins, Ralf; Boesecke, Peter

    2013-06-01

    Dispersions of crystalline nanoparticles with at least one sufficiently large unit cell dimension can give rise to Bragg reflections in the small-angle scattering range. If the nanocrystals possess only a small number of unit cells along these particular crystallographic directions, the corresponding Bragg reflections will be broadened. In a previous study of phospholipid stabilized dispersions of β-tripalmitin platelets [Unruh, J. Appl. Crystallogr.JACGAR0021-889810.1107/S0021889807044378 40, 1008 (2007)], the x-ray powder pattern simulation analysis (XPPSA) was developed. The XPPSA method facilitates the interpretation of the rather complicated small-angle x-ray scattering (SAXS) curves of such dispersions of nanocrystals. The XPPSA method yields the distribution function of the platelet thicknesses and facilitates a structural characterization of the phospholipid stabilizer layer at the solid-liquid interface between the nanocrystals and the dispersion medium from the shape of the broadened 001 Bragg reflection. In this contribution an improved and extended version of the XPPSA method is presented. The SAXS and small-angle neutron scattering patterns of dilute phospholipid stabilized tripalmitin dispersions can be reproduced on the basis of a consistent simulation model for the particles and their phospholipid stabilizer layer on an absolute scale. The results indicate a surprisingly flat arrangement of the phospholipid molecules in the stabilizer layer with a total thickness of only 12 Å. The stabilizer layer can be modeled by an inner shell for the fatty acid chains and an outer shell including the head groups and additional water. The experiments support a dense packing of the phospholipid molecules on the nanocrystal surfaces rather than isolated phospholipid domains.

  11. Small-Angle X-Ray Scattering of Reduced Ribonuclease A: Effects of Solution Conditions And Comparisons With a Computational Model of Unfolded Proteins

    SciTech Connect

    Wang, Y.; Trewhella, J.; Goldenberg, D.P.

    2009-05-26

    The disulfide-reduced form of bovine ribonuclease A, with the Cys thiols irreversibly blocked, was characterized by small-angle x-ray scattering. To help resolve the conflicting results and interpretations from previous studies of this model unfolded protein, we measured scattering profiles using a range of solution conditions and compared them with the profiles predicted by a computational model for a random-coil polypeptide. Analysis of the simulated and experimental profiles reveals that scattering intensities at intermediate angles, corresponding to interatomic distances in the range of 5--20 {angstrom}, are particularly sensitive to changes in solvation and can be used to assess the internal scaling behavior of the polypeptide chain, expressed as a mass fractal dimension, D{sub m}. This region of the scattering curve is also much less sensitive to experimental artifacts than is the very small angle regime (the Guinier region) that has been more typically used to characterize unfolded proteins. The experimental small-angle x-ray scattering profiles closely matched those predicted by the computational model assuming relatively small solvation energies. The scaling behavior of the polypeptide approaches that of a well-solvated polymer under conditions where it has a large net charge and at high urea concentrations. At lower urea concentrations and neutral pH, the behavior of the chain approaches that expected for {theta}-conditions, where the effects of slightly unfavorable interactions with solvent balance those of excluded volume, leading to scaling behavior comparable to that of an idealized random walk chain. Though detectable, the shift toward more compact conformations at lower urea concentrations does not correspond to a transition to a globule state and is associated with little or no reduction in conformational entropy. This type of collapse, therefore, is unlikely to greatly reduce the conformational search for the native state.

  12. SAXSANA: an interactive program for the analysis and monitoring of static and time-resolved small-angle X-ray solution scattering measurements.

    PubMed

    Hiragi, Yuzuru; Sano, Yoh; Matsumoto, Tomoharu

    2003-03-01

    An interactive analytical program, SAXSANA, for small-angle X-ray scattering measurements of solutions is described. The program processes scattered data without disciplined knowledge of small-angle scattering. SAXSANA also assists in finding the best experimental conditions, thus avoiding blind runs of experiments. SAXSANA consists of the following procedures: (i) determination of the centre of scattered X-rays and moment transfer Q (Q = 4pisintheta/lambda, where 2theta is the scattering angle and lambda is the wavelength) for each measured channel; (ii) conversion of the data format to the format of Q versus scattered intensities J(Q); (iii) truncation of unnecessary data and smoothing of scattering curves by cubic-spline function; (iv) correction of the absorption effect and subtraction of the scattered intensity of the buffer (solvent) solution from that of the sample solution; (v) creation of a data file for a three-dimensional representation of time-resolved scattering curves; (vi) determination of radii of gyration by Guinier plots; (vii) determination of persistent lengths by Kratky plots; (viii) extrapolation of the small-angle part by Guinier plots; (ix) extrapolation of the wide-angle part by Porod's & Luzzati's laws for the Hankel transformation in order to obtain the distance distribution function p(r); (x) calculation of p(r) and computation of the invariant, the chord length, the Volume, the spherical radius, the maximum dimension D(max) and the radius of gyration (Rg). SAXSANA also serves as an on-site monitor for the validity of an experimental result during the measurements.

  13. Anomalous X-ray Diffraction Studies for Photovoltaic Applications

    SciTech Connect

    Not Available

    2011-06-22

    Anomalous X-ray Diffraction (AXRD) has become a useful technique in characterizing bulk and nanomaterials as it provides specific information about the crystal structure of materials. In this project we present the results of AXRD applied to materials for photovoltaic applications: ZnO loaded with Ga and ZnCo{sub 2}O{sub 4} spinel. The X-ray diffraction data collected for various energies were plotted in Origin software. The peaks were fitted using different functions including Pseudo Voigt, Gaussian, and Lorentzian. This fitting provided the integrated intensity data (peaks area values), which when plotted as a function of X-ray energies determined the material structure. For the first analyzed sample, Ga was not incorporated into the ZnO crystal structure. For the ZnCo{sub 2}O{sub 4} spinel Co was found in one or both tetrahedral and octahedral sites. The use of anomalous X-ray diffraction (AXRD) provides element and site specific information for the crystal structure of a material. This technique lets us correlate the structure to the electronic properties of the materials as it allows us to probe precise locations of cations in the spinel structure. What makes it possible is that in AXRD the diffraction pattern is measured at a number of energies near an X-ray absorption edge of an element of interest. The atomic scattering strength of an element varies near its absorption edge and hence the total intensity of the diffraction peak changes by changing the X-ray energy. Thus AXRD provides element specific structural information. This method can be applied to both crystalline and liquid materials. One of the advantages of AXRD in crystallography experiments is its sensitivity to neighboring elements in the periodic tables. This method is also sensitive to specific crystallographic phases and to a specific site in a phase. The main use of AXRD in this study is for transparent conductors (TCs) analysis. TCs are considered to be important materials because of their

  14. Microfluidic Platforms for on-chip Formulation and Small-Angle x-ray Analysis of the Phase Behavior of Lipid/Water Mixtures

    SciTech Connect

    Khvostichenko, Daria S.; Perry, Sarah L.; Kondrashkina, Elena; Guha, Sudipto; Brister, Keith; Kenis, Paul J.A.

    2012-03-27

    We present a microfluidic platform for on-chip formulation and X-ray analysis of lipidic mesophases formed upon mixing lipids and water. The platform is designed to study the effect of detergents on the phase behavior of lipid/water mixtures. The platform allows automated preparation of multiple samples of different composition from stock solutions and subsequent on-chip small-angle X-ray diffraction (SAXS) data collection. To ensure X-ray transparency of the platform we used thin layers of cyclic olefin copolymer (COC) and PDMS. The viability of the platform is demonstrated by mapping out a section of the phase diagram for lipid monoolein mixed with solutions of detergent {beta}-octylglucoside. The platform reported here is a viable alternative to the traditional method of establishing phase diagrams for lipid/solution mixtures. Compared to the conventional approach, a significantly smaller amount of sample is required for mapping phase diagrams of lipidic mesophases and samples of various compositions are prepared automatically. In ongoing work we are using these chips to rapidly determine the phase behavior of a range of lipids to establish their suitability for membrane protein crystallization, especially with respect to their sensitivity to detergent concentration.

  15. Grazing-incidence small-angle X-ray scattering in a twofold rough-interface medium: a new theoretical approach using the q-eigenwave formalism.

    PubMed

    Chukhovskii, F N; Roshchin, B S

    2015-11-01

    Based on the rigorous Green function formalism to describe the grazing-incidence small-angle X-ray scattering (GISAXS) problem, a system of two linked integral equations is derived with respect to amplitudes of the reflected and transmitted plane q-eigenwaves (eigenstate functions) propagating through two homogeneous media separated from each other by a rough surface interface. To build up the coupled solutions of these basic equations beyond the perturbation theory constraint 2kσθ0 < 1, a simple iteration procedure is proposed as opposed to the self-consistent wave approach [Chukhovskii (2011). Acta Cryst. A67, 200-209; Chukhovski (2012). Acta Cryst. A68, 505-512]. Using the first-order iteration, analytical expressions for the averaged specular and non-specular scattering intensity distributions have been obtained. These expressions are further analysed in terms of the GISAXS parameters {k, θ, θ0} and surface finish ones {σ, l, h}, where θ and θ0 are the scattering and incidence angles of the X-rays, respectively, σ is the root-mean-square roughness, l is the correlation length, h is the fractal surface model index, k = 2π/λ, and λ is the X-ray wavelength. A direct way to determine the surface finish parameters from the experimental specular and diffuse scattering indicatrix scan data is discussed for an example of GISAXS measurements from rough surfaces of α-quartz and CdTe samples. PMID:26522410

  16. Small-angle and wide-angle X-ray scattering study on the bilayer structure of synthetic and bovine heart cardiolipins

    NASA Astrophysics Data System (ADS)

    Takahashi, Hiroshi; Hayakawa, Tomohiro; Ito, Kazuki; Takata, Masaki; Kobayashi, Toshihide

    2010-10-01

    Cardiolipin (CL) is a membrane phospholipid containing four fatty acid chains. CL plays an important role in energy transformation in mitochondria. The disorder of CL biosynthesis is involved in a genetic disease, Barth syndrome. Alteration of fatty acid composition of CLs has been found in Barth syndrome patients, i.e., the decrease of unsaturated fatty acid chains. In this study, we investigated how the degree of saturation alters the structure of CL bilayers by using X-ray scattering. Bovine heart CL and two synthetic CLs were compared. Fatty acid compositions of these three CLs have different saturation. Small-angle X-ray scattering data showed that the decrease of the number of double bonds in the unsaturated fatty acid chains causes to thicken the CL bilayers. In addition, wide-angle X-ray scattering data suggested that the decrease reduces the degree of disorder of the hydrophobic region in a liquid crystalline phase. These results may be related to the dysfunction of mitochondria in Barth syndrome.

  17. Interaction between lamellar (vesicles) and nonlamellar lipid liquid-crystalline nanoparticles as studied by time-resolved small-angle X-ray diffraction.

    PubMed

    Vandoolaeghe, Pauline; Barauskas, Justas; Johnsson, Markus; Tiberg, Fredrïk; Nylander, Tommy

    2009-04-01

    The kinetics of structure change when dispersions of two different types of lipid-based liquid-crystalline phases, one lamellar and one reversed, are mixed has been investigated using synchrotron small-angle X-ray diffraction and ellipsometry. The systems studied were (i) cubic-phase nanoparticles (CPNPs) based on glycerol monooleate (GMO) stabilized with a nonionic block copolymer, Pluronic F-127; (ii) CPNPs based on phytantriol (PtOH) stabilized with D-alpha-Tocopheryl polyethylene glycol 1000 succinate (Vitamin E TPGS); and (iii) hexagonal-phase nanoparticles (HPNPs) based on a lipid mixture of diglycerol monooleate/glycerol dioleate, stabilized by Pluronic F-127. Time-resolved small-angle X-ray diffraction was used to track structural changes within nonlamellar nanoparticles when they interact with uni- and multilamellar vesicles of dioleoylphosphatidylcholine and dipalmitoylphatidylcholine. The results are very dependent on the type of nanoparticles under investigation. For GMO-based CPNPs, a strong interaction is observed on mixing with vesicular dispersions that leads to large changes in unit size dimensions as well as a later transition from cubic to lamellar structure. These results are in good agreement with previous studies on the interaction of GMO-based CPNPs with planar bilayers using neutron reflectivity, where the diffraction peak shifted with time upon mixing. The structural changes are much less prominent for the PtOH-based CPNPs and the HPNPs upon mixing with phospholipid vesicles. These results are correlated with those from measurement studying interactions between the liquid-crystalline nanoparticles and supported phospholipid bilayers by ellipsometry. Also, here the GMO-based CPNPs show more pronounced and rapid adsorption and interaction with the supported bilayer surface than do the other types of nonlamellar nanoparticles. The interaction also depends on the bilayer properties, where significantly slower lipid mixing is observed for a

  18. Small-Angle X-ray Scattering Demonstrates Similar Nanostructure in Cortical Bone from Young Adult Animals of Different Species.

    PubMed

    Kaspersen, Jørn Døvling; Turunen, Mikael Juhani; Mathavan, Neashan; Lages, Sebastian; Pedersen, Jan Skov; Olsson, Ulf; Isaksson, Hanna

    2016-07-01

    Despite the vast amount of studies focusing on bone nanostructure that have been performed for several decades, doubts regarding the detailed structure of the constituting hydroxyapatite crystal still exist. Different experimental techniques report somewhat different sizes and locations, possibly due to different requirements for the sample preparation. In this study, small- and wide-angle X-ray scattering is used to investigate the nanostructure of femur samples from young adult ovine, bovine, porcine, and murine cortical bone, including three different orthogonal directions relative to the long axis of the bone. The radially averaged scattering from all samples reveals a remarkable similarity in the entire q range, which indicates that the nanostructure is essentially the same in all species. Small differences in the data from different directions confirm that the crystals are elongated in the [001] direction and that this direction is parallel to the long axis of the bone. A model consisting of thin plates is successfully employed to describe the scattering and extract the plate thicknesses, which are found to be in the range of 20-40 Å for most samples but 40-60 Å for the cow samples. It is demonstrated that the mineral plates have a large degree of polydispersity in plate thickness. Additionally, and equally importantly, the scattering data and the model are critically evaluated in terms of model uncertainties and overall information content.

  19. Small-Angle X-ray Scattering Demonstrates Similar Nanostructure in Cortical Bone from Young Adult Animals of Different Species.

    PubMed

    Kaspersen, Jørn Døvling; Turunen, Mikael Juhani; Mathavan, Neashan; Lages, Sebastian; Pedersen, Jan Skov; Olsson, Ulf; Isaksson, Hanna

    2016-07-01

    Despite the vast amount of studies focusing on bone nanostructure that have been performed for several decades, doubts regarding the detailed structure of the constituting hydroxyapatite crystal still exist. Different experimental techniques report somewhat different sizes and locations, possibly due to different requirements for the sample preparation. In this study, small- and wide-angle X-ray scattering is used to investigate the nanostructure of femur samples from young adult ovine, bovine, porcine, and murine cortical bone, including three different orthogonal directions relative to the long axis of the bone. The radially averaged scattering from all samples reveals a remarkable similarity in the entire q range, which indicates that the nanostructure is essentially the same in all species. Small differences in the data from different directions confirm that the crystals are elongated in the [001] direction and that this direction is parallel to the long axis of the bone. A model consisting of thin plates is successfully employed to describe the scattering and extract the plate thicknesses, which are found to be in the range of 20-40 Å for most samples but 40-60 Å for the cow samples. It is demonstrated that the mineral plates have a large degree of polydispersity in plate thickness. Additionally, and equally importantly, the scattering data and the model are critically evaluated in terms of model uncertainties and overall information content. PMID:26914607

  20. Melting and Sintering of a Body-Centered Cubic Superlattice of PbSe Nanocrystals Followed by Small Angle X-ray Scattering

    PubMed Central

    Goodfellow, Brian W.; Patel, Reken N.; Panthani, Matthew G.; Smilgies, Detlef-M.; Korgel, Brian A.

    2011-01-01

    The structural evolution of a body-centered cubic (bcc) superlattice of 6.6 nm diameter organic ligand-coated PbSe nanocrystals was studied in situ by small angle X-ray scattering (SAXS) as it was heated in air from room temperature to 350°C. As it was heated above room temperature, the superlattice contracted slightly, but maintained bcc structure up to 110°C. Once the temperature rose above 110°C, the superlattice began to disorder, by first losing long-range translational order and then local positional order. At temperatures exceeding 168°C, the nanocrystals sintered and oxidized, transforming into PbSeO3 nanorods. PMID:21566701

  1. In situ study of the state of lysozyme molecules at the very early stage of the crystallization process by small-angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Marchenkova, M. A.; Volkov, V. V.; Blagov, A. E.; Dyakova, Yu. A.; Ilina, K. B.; Tereschenko, E. Yu.; Timofeev, V. I.; Pisarevsky, Yu. V.; Kovalchuk, M. V.

    2016-01-01

    The molecular state of hen egg white lysozyme in solution has been studied by small-angle X-ray scattering (SAXS) combined with molecular simulation. The addition of a precipitant is shown to change the state of the protein molecules in solution. The SAXS data were processed using the constructed models of different oligomers. Under the crystallization conditions, lysozyme is shown to be present in solution as monomers (96.0%), dimers (1.9%), and octamers (2.1%), whereas tetramers and hexamers are not found. The modeled structure of the octamer is not consistent with the commonly accepted unit cell containing eight lysozyme molecules. Meanwhile, the modeled octamers are well-fitted to the crystal structure and can serve as building blocks in the course of crystal growth.

  2. Structural characterization of a flexible two-domain protein in solution using Small Angle X-ray Scattering and NMR spectroscopy

    PubMed Central

    Lemak, Alexander; Wu, Bin; Yee, Adelinda; Houliston, Scott; Lee, Hsiau-Wei; Gutmanas, Aleksandras; Fang, Xianyang; Garcia, Maite; Semesi, Anthony; Wang, Yun-Xing; Prestegard, James H.; Arrowsmith, Cheryl H.

    2016-01-01

    SUMMARY Multidomain proteins in which individual domains are connected by linkers often possess inherent inter-domain flexibility that significantly complicates their structural characterization in solution using either NMR spectroscopy or small-angle X-ray scatting (SAXS) alone. Here we report a novel protocol for joint refinement of flexible multidomain protein structures against NMR distance and angular restraints, residual dipolar couplings and SAXS data. The protocol is based on the EOM principle (Bernardo et al., 2007) and is compared with different refinement strategies for the structural characterization of the flexible two-domain protein sf3636 from Shigella flexneri 2a. The results of our refinement suggest the existence of a dominant population of configurational states in solution possessing an overall elongated shape and restricted relative twisting of the two domains. PMID:25456817

  3. Wavelet-based feature extraction applied to small-angle x-ray scattering patterns from breast tissue: a tool for differentiating between tissue types.

    PubMed

    Falzon, G; Pearson, S; Murison, R; Hall, C; Siu, K; Evans, A; Rogers, K; Lewis, R

    2006-05-21

    This paper reports on the application of wavelet decomposition to small-angle x-ray scattering (SAXS) patterns from human breast tissue produced by a synchrotron source. The pixel intensities of SAXS patterns of normal, benign and malignant tissue types were transformed into wavelet coefficients. Statistical analysis found significant differences between the wavelet coefficients describing the patterns produced by different tissue types. These differences were then correlated with position in the image and have been linked to the supra-molecular structural changes that occur in breast tissue in the presence of disease. Specifically, results indicate that there are significant differences between healthy and diseased tissues in the wavelet coefficients that describe the peaks produced by the axial d-spacing of collagen. These differences suggest that a useful classification tool could be based upon the spectral information within the axial peaks.

  4. Note: Comparison of grazing incidence small angle x-ray scattering of a titania sponge structure at the beamlines BW4 (DORIS III) and P03 (PETRA III)

    SciTech Connect

    Rawolle, M.; Koerstgens, V.; Ruderer, M. A.; Metwalli, E.; Guo, S.; Mueller-Buschbaum, P.; Herzog, G.; Benecke, G.; Schwartzkopf, M.; Buffet, A.; Perlich, J.; Roth, S. V.

    2012-10-15

    Grazing incidence small angle x-ray scattering (GISAXS) is a powerful technique for morphology investigation of nanostructured thin films. GISAXS measurements at the newly installed P03 beamline at the storage ring PETRA III in Hamburg, Germany, are compared to the GISAXS data from the beamline BW4 at the storage ring DORIS III, which had been used extensively for GISAXS investigations in the past. As an example, a titania thin film sponge structure is investigated. Compared to BW4, at beamline P03 the resolution of larger structures is slightly improved and a higher incident flux leads to a factor of 750 in scattered intensity. Therefore, the acquisition time in GISAXS geometry is reduced significantly at beamline P03.

  5. In situ synchrotron study of liquid phase separation process in Al-10 wt.% Bi immiscible alloys by radiography and small angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Lu, W. Q.; Zhang, S. G.; Li, J. G.

    2016-03-01

    Liquid phase separation process of immiscible alloys has been repeatedly tuned to create special structure for developing materials with unique properties. However, the fundamental understanding of the liquid phase separation process is still under debate due to the characteristics of immiscible alloys in opacity and high temperature environment of alloy melt. Here, the liquid phase separation process in solidifying Al-Bi immiscible alloys was investigated by synchrotron radiography and small angle X-ray scattering. We provide the first direct evidence of surface segregation prior to liquid decomposition and present that the time dependence on the number of Bi droplets follows Logistic curve. The liquid decomposition results from a nucleation and growth process rather than spinodal decomposition mechanism because of the positive deviation from Porod's law. We also found that the nanometer-sized Bi-rich droplets in Al matrix melt present mass fractal characteristics.

  6. Study of Small Angle X-Ray Scattering Features of Acid- and Alkali-Treated Silk Fibre (Mulberry) Using Correlation Functions

    NASA Astrophysics Data System (ADS)

    Misra, Tripurari; Panda, Pramoda; Patel, Tnkadhar; Bisoyi, Dillip K.; Panda, Dillip K.

    1993-10-01

    Silk fibres at room temperature after treatment with solutions of HCl (pH=2) and NaOH (pH=10) have been investigated using the SAXS (small angle X-ray scattering) technique. The theories developed by Vonk (1973) and Ruland (1971) for nonideal two-phase structure characterised by continuous variation of electron density at the phase boundary have been applied to calculate various macromolecular parameters such as the width of transition layer, the average periodicity transverse to the layer, the specific inner surface, the length of coherence, the transversal lengths in matter and void, the range of inhomogeneity, the volume fractions of matter and void, the volume fraction of the transition layer and the characteristic number.

  7. Guanosine Quadruplexes in Solution: A Small-Angle X-Ray Scattering Analysis of Temperature Effects on Self-Assembling of Deoxyguanosine Monophosphate

    PubMed Central

    Mariani, P.; Spinozzi, F.; Federiconi, F.; Ortore, M. G.; Amenitsch, H.; Spindler, L.; Drevensek-Olenik, I.

    2010-01-01

    We investigated quadruplex formation in aqueous solutions of 2′-deoxyriboguanosine 5′-monophosphate, d(pG), which takes place in the absence of the covalent axial backbone. A series of in-solution small angle X-ray scattering experiments on d(pG) have been performed as a function of temperature in the absence of excess salt, at a concentration just above the critical one at which self-assembling occurs. A global fit approach has been used to derive composition and size distribution of the scattering particles as a function of temperature. The obtained results give thermodynamical justification for the observed phase-behavior, indicating that octamer formation is essential for quadruplex elongation. Our investigation shows that d(pG) quadruplexes are very suitable to assess the potential of G-quadruplex formation and to study the self-assembling thermodynamics. PMID:20725625

  8. Comprehension of direct extraction of hydrophilic antioxidants using vegetable oils by polar paradox theory and small angle X-ray scattering analysis.

    PubMed

    Li, Ying; Fabiano-Tixier, Anne Sylvie; Ruiz, Karine; Rossignol Castera, Anne; Bauduin, Pierre; Diat, Olivier; Chemat, Farid

    2015-04-15

    Since the polar paradox theory rationalised the fact that polar antioxidants are more effective in nonpolar media, extractions of phenolic compounds in vegetable oils were inspired and achieved in this study for obtaining oils enriched in phenolic compounds. Moreover, the influence of surfactants on the extractability of phenolic compounds was experimentally studied first, followed by the small angle X-ray scattering analysis for the oil structural observation before and after extraction so as to better understand the dissolving mechanism underpinning the extraction. The results showed a significant difference on the extraction yield of phenolic compounds among oils, which was mainly dependent on their composition instead of the unsaturation of fatty acids. Appropriate surfactant additions could significantly improve extraction yield for refined sunflower oils, which 1% w/w addition of glyceryl oleate was determined as the optimal. Besides, 5% w/w addition of lecithin performed the best in oil enrichments compared with mono- and di-glycerides. PMID:25466101

  9. Comprehension of direct extraction of hydrophilic antioxidants using vegetable oils by polar paradox theory and small angle X-ray scattering analysis.

    PubMed

    Li, Ying; Fabiano-Tixier, Anne Sylvie; Ruiz, Karine; Rossignol Castera, Anne; Bauduin, Pierre; Diat, Olivier; Chemat, Farid

    2015-04-15

    Since the polar paradox theory rationalised the fact that polar antioxidants are more effective in nonpolar media, extractions of phenolic compounds in vegetable oils were inspired and achieved in this study for obtaining oils enriched in phenolic compounds. Moreover, the influence of surfactants on the extractability of phenolic compounds was experimentally studied first, followed by the small angle X-ray scattering analysis for the oil structural observation before and after extraction so as to better understand the dissolving mechanism underpinning the extraction. The results showed a significant difference on the extraction yield of phenolic compounds among oils, which was mainly dependent on their composition instead of the unsaturation of fatty acids. Appropriate surfactant additions could significantly improve extraction yield for refined sunflower oils, which 1% w/w addition of glyceryl oleate was determined as the optimal. Besides, 5% w/w addition of lecithin performed the best in oil enrichments compared with mono- and di-glycerides.

  10. Unraveling the Nanostructure and Chain Conformation of Peptide-polymer Conjugates in Solution using Small-angle X-ray Scattering

    NASA Astrophysics Data System (ADS)

    Lund, Reidar; Xu, Ting; Dong, He

    For therapeutics, polymer functionalization, often by poly(ethylene glycol), PEG (``PEGylation''), is an effective method to improve the solubility, increase the life time and protect the proteins from the immune system[1]. However it is essential that the proteins maintain their structural integrity in solution- thus the role of the polymer and their interactions with proteins needs to be understood. In this work we show how small-angle X-ray scattering (SAXS) can be used as a powerful technique to characterize the structural components of peptide-polymer conjugates in solution [2, 3]. We specifically show that by applying detailed modelling very detailed structural features can be revealed, including the PEG chain conformation. In the presentation we will provide an overview of the methodology, specifically addressing peptides that form either alpha-helical bundles [2, 3] or beta-sheet structures [4, 5] and relate their structure in solution to their crystal structure.

  11. Study of the Crystalline Morphology Evolution of PET and PET/PC Blends by Time-resolved Synchrotron Small Angle X-ray Scattering (SAXS) and DSC

    SciTech Connect

    Barbosa, Irineu; Larocca, Nelson M.; Hage, Elias; Plivelic, Tomas S.; Torriani, Iris L.; Mantovani, Gerson L.

    2009-01-29

    Isothermal melt crystallization of poly(ethylene terephthalate)(PET) and PET/PC (polycarbonate) blend, with and without a transesterification catalyst, was studied by time-resolved small-angle X-ray scattering (SAXS) and differential scanning calorimetry (DSC) in order to achieve the variation of the morphological parameters throughout the whole crystallization time. For neat PET, the catalyst promotes a decrease of the crystal lamellar thickness but for the blend no variations were observed. The effect of incorporation of catalyst in crystallization kinetics was very distinct in PET pure and the blend: in the former the catalyst leads to an increase of this kinetics while for the latter it was observed a decreasing.

  12. Transformation from Multilamellar to Unilamellar Vesicles by Addition of a Cationic Lipid to PEGylated Liposomes Explored with Synchrotron Small Angle X-ray Scattering

    NASA Astrophysics Data System (ADS)

    Sakuragi, Mina; Koiwai, Kazunori; Nakamura, Kouji; Masunaga, Hiroyasu; Ogawa, Hiroki; Sakurai, Kazuo

    2011-01-01

    PEGylated liposomes composed of a benzamidine derivative (TRX), hydrogenated soybean phosphatidylcholine (HSPC), and N-(monomethoxy-polyethyleneglycolcarbamyl) distearoyl phosphatidylethanolamine (PEG-PE) were examined in terms of how the addition of TRX affects their structures with small angle x-ray scattering (SAXS) as well as transmission electron microscopy (TEM). TEM images showed the presence of unilamella vesicles for both with and without TRX, though a small amount of multilamella vesicles were observed in absence of TRX. We analyzed SAXS profiles at contained TRX composition combined with contrast variation technique by adding PEG solution and unilamella vesicle model could be reproduced. Subsequently, we analyzed SAXS profiles at no TRX composition. The mixture model of unilamella and multilamella vesicle was reconstructed and we estimated about 10 % multilamella vesicles from a fitting parameter.

  13. Crystal Structures and Small-angle X-ray Scattering Analysis of UDP-galactopyranose Mutase from the Pathogenic Fungus Aspergillus fumigatus

    SciTech Connect

    Dhatwalia, Richa; Singh, Harkewal; Oppenheimer, Michelle; Karr, Dale B.; Nix, Jay C.; Sobrado, Pablo; Tanner, John J.

    2015-10-15

    UDP-galactopyranose mutase (UGM) is a flavoenzyme that catalyzes the conversion of UDP-galactopyranose to UDP-galactofuranose, which is a central reaction in galactofuranose biosynthesis. Galactofuranose has never been found in humans but is an essential building block of the cell wall and extracellular matrix of many bacteria, fungi, and protozoa. The importance of UGM for the viability of many pathogens and its absence in humans make UGM a potential drug target. Here we report the first crystal structures and small-angle x-ray scattering data for UGM from the fungus Aspergillus fumigatus, the causative agent of aspergillosis. The structures reveal that Aspergillus UGM has several extra secondary and tertiary structural elements that are not found in bacterial UGMs yet are important for substrate recognition and oligomerization. Small-angle x-ray scattering data show that Aspergillus UGM forms a tetramer in solution, which is unprecedented for UGMs. The binding of UDP or the substrate induces profound conformational changes in the enzyme. Two loops on opposite sides of the active site move toward each other by over 10 {angstrom} to cover the substrate and create a closed active site. The degree of substrate-induced conformational change exceeds that of bacterial UGMs and is a direct consequence of the unique quaternary structure of Aspergillus UGM. Galactopyranose binds at the re face of the FAD isoalloxazine with the anomeric carbon atom poised for nucleophilic attack by the FAD N5 atom. The structural data provide new insight into substrate recognition and the catalytic mechanism and thus will aid inhibitor design.

  14. Coagulation of Na-montmorillonite by inorganic cations at neutral pH. A combined transmission X-ray microscopy, small angle and wide angle X-ray scattering study.

    PubMed

    Michot, Laurent J; Bihannic, Isabelle; Thomas, Fabien; Lartiges, Bruno S; Waldvogel, Yves; Caillet, Céline; Thieme, Juergen; Funari, Sérgio S; Levitz, Pierre

    2013-03-12

    The coagulation of sodium montmorillonite by inorganic salts (NaNO3, Ca(NO3)2 and La(NO3)3) was studied by combining classical turbidity measurements with wide-angle-X-ray scattering (WAXS), small-angle-X-ray scattering (SAXS), and transmission X-ray microscopy (TXM). Using size-selected samples, such a combination, associated with an original quantitative treatment of TXM images, provides a true multiscale investigation of the formed structures in a spatial range extending from a few ångstroms to a few micrometers. We then show that, at neutral pH and starting with fully Na-exchanged samples, coagulation proceeds via the formation of stacks of particles with a slight mismatch between layers. These stacks arrange themselves into larger porous anisotropic particles, the porosity of which depends on the valence of the cation used for coagulation experiments. Face-face coagulation is clearly dominant under those conditions, and no evidence for significant face-edge coagulation was found. These structures appear to arrange as larger clusters, the organization of which should control the mechanical properties of the flocs. PMID:23421550

  15. Quantitative determination of the lateral density and intermolecular correlation between proteins anchored on the membrane surfaces using grazing incidence small-angle X-ray scattering and grazing incidence X-ray fluorescence

    NASA Astrophysics Data System (ADS)

    Abuillan, Wasim; Vorobiev, Alexei; Hartel, Andreas; Jones, Nicola G.; Engstler, Markus; Tanaka, Motomu

    2012-11-01

    As a physical model of the surface of cells coated with densely packed, non-crystalline proteins coupled to lipid anchors, we functionalized the surface of phospholipid membranes by coupling of neutravidin to biotinylated lipid anchors. After the characterization of fine structures perpendicular to the plane of membrane using specular X-ray reflectivity, the same membrane was characterized by grazing incidence small angle X-ray scattering (GISAXS). Within the framework of distorted wave Born approximation and two-dimensional Percus-Yevick function, we can analyze the form and structure factors of the non-crystalline, membrane-anchored proteins for the first time. As a new experimental technique to quantify the surface density of proteins on the membrane surface, we utilized grazing incidence X-ray fluorescence (GIXF). Here, the mean intermolecular distance between proteins from the sulfur peak intensities can be calculated by applying Abelé's matrix formalism. The characteristic correlation distance between non-crystalline neutravidin obtained by the GISAXS analysis agrees well with the intermolecular distance calculated by GIXF, suggesting a large potential of the combination of GISAXS and GIXF in probing the lateral density and correlation of non-crystalline proteins displayed on the membrane surface.

  16. An Optimized Table-Top Small-Angle X-ray Scattering Set-up for the Nanoscale Structural Analysis of Soft Matter

    NASA Astrophysics Data System (ADS)

    Sibillano, T.; de Caro, L.; Altamura, D.; Siliqi, D.; Ramella, M.; Boccafoschi, F.; Ciasca, G.; Campi, G.; Tirinato, L.; di Fabrizio, E.; Giannini, C.

    2014-11-01

    The paper shows how a table top superbright microfocus laboratory X-ray source and an innovative restoring-data algorithm, used in combination, allow to analyze the super molecular structure of soft matter by means of Small Angle X-ray Scattering ex-situ experiments. The proposed theoretical approach is aimed to restore diffraction features from SAXS profiles collected from low scattering biomaterials or soft tissues, and therefore to deal with extremely noisy diffraction SAXS profiles/maps. As biological test cases we inspected: i) residues of exosomes' drops from healthy epithelial colon cell line and colorectal cancer cells; ii) collagen/human elastin artificial scaffolds developed for vascular tissue engineering applications; iii) apoferritin protein in solution. Our results show how this combination can provide morphological/structural nanoscale information to characterize new artificial biomaterials and/or to get insight into the transition between healthy and pathological tissues during the progression of a disease, or to morphologically characterize nanoscale proteins, based on SAXS data collected in a room-sized laboratory.

  17. Domain Movements upon Activation of Phenylalanine Hydroxylase Characterized by Crystallography and Chromatography-Coupled Small-Angle X-ray Scattering.

    PubMed

    Meisburger, Steve P; Taylor, Alexander B; Khan, Crystal A; Zhang, Shengnan; Fitzpatrick, Paul F; Ando, Nozomi

    2016-05-25

    Mammalian phenylalanine hydroxylase (PheH) is an allosteric enzyme that catalyzes the first step in the catabolism of the amino acid phenylalanine. Following allosteric activation by high phenylalanine levels, the enzyme catalyzes the pterin-dependent conversion of phenylalanine to tyrosine. Inability to control elevated phenylalanine levels in the blood leads to increased risk of mental disabilities commonly associated with the inherited metabolic disorder, phenylketonuria. Although extensively studied, structural changes associated with allosteric activation in mammalian PheH have been elusive. Here, we examine the complex allosteric mechanisms of rat PheH using X-ray crystallography, isothermal titration calorimetry (ITC), and small-angle X-ray scattering (SAXS). We describe crystal structures of the preactivated state of the PheH tetramer depicting the regulatory domains docked against the catalytic domains and preventing substrate binding. Using SAXS, we further describe the domain movements involved in allosteric activation of PheH in solution and present the first demonstration of chromatography-coupled SAXS with Evolving Factor Analysis (EFA), a powerful method for separating scattering components in a model-independent way. Together, these results support a model for allostery in PheH in which phenylalanine stabilizes the dimerization of the regulatory domains and exposes the active site for substrate binding and other structural changes needed for activity. PMID:27145334

  18. Characterization of Lipid-Templated Silica and Hybrid Thin Film Mesophases by Grazing Incidence Small-Angle X-ray Scattering

    PubMed Central

    Dunphy, Darren R.; Alam, Todd M.; Tate, Michael P.; Hillhouse, Hugh W.; Smarsly, Bernd; Collord, Andrew D.; Carnes, Eric; Baca, Helen K.; Köhn, Ralf; Sprung, Michael; Wang, Jin; Brinker, C. Jeffrey

    2009-01-01

    The nanostructure of silica and hybrid thin film mesophases templated by phospholipids via an evaporation-induced self-assembly (EISA) process was investigated by grazing-incidence small-angle X-ray scattering (GISAXS). Diacyl phosphatidylcholines with two tails of 6 or 8 carbons were found to template 2D hexagonal mesophases, with the removal of lipid from these lipid/silica films by thermal or UV/O3 processing resulting in a complete collapse of the pore volume. Monoacyl phosphatidylcholines with single tails of 10–14 carbons formed 3D micellular mesophases; the lipid was found to be extractable from these 3D materials, yielding a porous material. In contrast to pure lipid/silica thin film mesophases, films formed from the hybrid bridged silsesquioxane precursor bis(triethoxysilyl)ethane exhibited greater stability toward (both diacyl and monoacyl) lipid removal. Ellipsometric, FTIR, and NMR studies show that the presence of phospholipid suppresses siloxane network formation, while actually promoting condensation reactions in the hybrid material. 1D X-ray scattering and FTIR data were found to be consistent with strong interactions between lipid headgroups and the silica framework. PMID:19496546

  19. An Optimized Table-Top Small-Angle X-ray Scattering Set-up for the Nanoscale Structural Analysis of Soft Matter

    PubMed Central

    Sibillano, T.; De Caro, L.; Altamura, D.; Siliqi, D.; Ramella, M.; Boccafoschi, F.; Ciasca, G.; Campi, G.; Tirinato, L.; Di Fabrizio, E.; Giannini, C.

    2014-01-01

    The paper shows how a table top superbright microfocus laboratory X-ray source and an innovative restoring-data algorithm, used in combination, allow to analyze the super molecular structure of soft matter by means of Small Angle X-ray Scattering ex-situ experiments. The proposed theoretical approach is aimed to restore diffraction features from SAXS profiles collected from low scattering biomaterials or soft tissues, and therefore to deal with extremely noisy diffraction SAXS profiles/maps. As biological test cases we inspected: i) residues of exosomes' drops from healthy epithelial colon cell line and colorectal cancer cells; ii) collagen/human elastin artificial scaffolds developed for vascular tissue engineering applications; iii) apoferritin protein in solution. Our results show how this combination can provide morphological/structural nanoscale information to characterize new artificial biomaterials and/or to get insight into the transition between healthy and pathological tissues during the progression of a disease, or to morphologically characterize nanoscale proteins, based on SAXS data collected in a room-sized laboratory. PMID:25382272

  20. A method for helical RNA global structure determination in solution using small-angle x-ray scattering and NMR measurements.

    PubMed

    Wang, Jinbu; Zuo, Xiaobing; Yu, Ping; Xu, Huan; Starich, Mary R; Tiede, David M; Shapiro, Bruce A; Schwieters, Charles D; Wang, Yun-Xing

    2009-10-30

    We report a "top-down" method that uses mainly duplexes' global orientations and overall molecular dimension and shape restraints, which were extracted from experimental NMR and small-angle X-ray scattering data, respectively, to determine global architectures of RNA molecules consisting of mostly A-form-like duplexes. The method is implemented in the G2G (from global measurement to global structure) toolkit of programs. We demonstrate the efficiency and accuracy of the method by determining the global structure of a 71-nt RNA using experimental data. The backbone root-mean-square deviation of the ensemble of the calculated global structures relative to the X-ray crystal structure is 3.0+/-0.3 A using the experimental data and is only 2.5+/-0.2 A for the three duplexes that were orientation restrained during the calculation. The global structure simplifies interpretation of multidimensional nuclear Overhauser spectra for high-resolution structure determination. The potential general application of the method for RNA structure determination is discussed. PMID:19666030

  1. A Mo-anode-based in-house source for small-angle X-ray scattering measurements of biological macromolecules.

    PubMed

    Bruetzel, Linda K; Fischer, Stefan; Salditt, Annalena; Sedlak, Steffen M; Nickel, Bert; Lipfert, Jan

    2016-02-01

    We demonstrate the use of a molybdenum-anode-based in-house small-angle X-ray scattering (SAXS) setup to study biological macromolecules in solution. Our system consists of a microfocus X-ray tube delivering a highly collimated flux of 2.5 × 10(6) photons/s at a beam size of 1.2 × 1.2 mm(2) at the collimation path exit and a maximum beam divergence of 0.16 mrad. The resulting observable scattering vectors q are in the range of 0.38 Å(-1) down to 0.009 Å(-1) in SAXS configuration and of 0.26 Å(-1) up to 5.7 Å(-1) in wide-angle X-ray scattering (WAXS) mode. To determine the capabilities of the instrument, we collected SAXS data on weakly scattering biological macromolecules including proteins and a nucleic acid sample with molecular weights varying from ∼12 to 69 kDa and concentrations of 1.5-24 mg/ml. The measured scattering data display a high signal-to-noise ratio up to q-values of ∼0.2 Å(-1) allowing for an accurate structural characterization of the samples. Moreover, the in-house source data are of sufficient quality to perform ab initio 3D structure reconstructions that are in excellent agreement with the available crystallographic structures. In addition, measurements for the detergent decyl-maltoside show that the setup can be used to determine the size, shape, and interactions (as characterized by the second virial coefficient) of detergent micelles. This demonstrates that the use of a Mo-anode based in-house source is sufficient to determine basic geometric parameters and 3D shapes of biomolecules and presents a viable alternative to valuable beam time at third generation synchrotron sources. PMID:26931887

  2. A Mo-anode-based in-house source for small-angle X-ray scattering measurements of biological macromolecules

    NASA Astrophysics Data System (ADS)

    Bruetzel, Linda K.; Fischer, Stefan; Salditt, Annalena; Sedlak, Steffen M.; Nickel, Bert; Lipfert, Jan

    2016-02-01

    We demonstrate the use of a molybdenum-anode-based in-house small-angle X-ray scattering (SAXS) setup to study biological macromolecules in solution. Our system consists of a microfocus X-ray tube delivering a highly collimated flux of 2.5 × 106 photons/s at a beam size of 1.2 × 1.2 mm2 at the collimation path exit and a maximum beam divergence of 0.16 mrad. The resulting observable scattering vectors q are in the range of 0.38 Å-1 down to 0.009 Å-1 in SAXS configuration and of 0.26 Å-1 up to 5.7 Å-1 in wide-angle X-ray scattering (WAXS) mode. To determine the capabilities of the instrument, we collected SAXS data on weakly scattering biological macromolecules including proteins and a nucleic acid sample with molecular weights varying from ˜12 to 69 kDa and concentrations of 1.5-24 mg/ml. The measured scattering data display a high signal-to-noise ratio up to q-values of ˜0.2 Å-1 allowing for an accurate structural characterization of the samples. Moreover, the in-house source data are of sufficient quality to perform ab initio 3D structure reconstructions that are in excellent agreement with the available crystallographic structures. In addition, measurements for the detergent decyl-maltoside show that the setup can be used to determine the size, shape, and interactions (as characterized by the second virial coefficient) of detergent micelles. This demonstrates that the use of a Mo-anode based in-house source is sufficient to determine basic geometric parameters and 3D shapes of biomolecules and presents a viable alternative to valuable beam time at third generation synchrotron sources.

  3. A Mo-anode-based in-house source for small-angle X-ray scattering measurements of biological macromolecules.

    PubMed

    Bruetzel, Linda K; Fischer, Stefan; Salditt, Annalena; Sedlak, Steffen M; Nickel, Bert; Lipfert, Jan

    2016-02-01

    We demonstrate the use of a molybdenum-anode-based in-house small-angle X-ray scattering (SAXS) setup to study biological macromolecules in solution. Our system consists of a microfocus X-ray tube delivering a highly collimated flux of 2.5 × 10(6) photons/s at a beam size of 1.2 × 1.2 mm(2) at the collimation path exit and a maximum beam divergence of 0.16 mrad. The resulting observable scattering vectors q are in the range of 0.38 Å(-1) down to 0.009 Å(-1) in SAXS configuration and of 0.26 Å(-1) up to 5.7 Å(-1) in wide-angle X-ray scattering (WAXS) mode. To determine the capabilities of the instrument, we collected SAXS data on weakly scattering biological macromolecules including proteins and a nucleic acid sample with molecular weights varying from ∼12 to 69 kDa and concentrations of 1.5-24 mg/ml. The measured scattering data display a high signal-to-noise ratio up to q-values of ∼0.2 Å(-1) allowing for an accurate structural characterization of the samples. Moreover, the in-house source data are of sufficient quality to perform ab initio 3D structure reconstructions that are in excellent agreement with the available crystallographic structures. In addition, measurements for the detergent decyl-maltoside show that the setup can be used to determine the size, shape, and interactions (as characterized by the second virial coefficient) of detergent micelles. This demonstrates that the use of a Mo-anode based in-house source is sufficient to determine basic geometric parameters and 3D shapes of biomolecules and presents a viable alternative to valuable beam time at third generation synchrotron sources.

  4. A study of the effect of formalin preservation on normal and cancerous breast tissues using small angle X-ray scattering (SAXS)

    NASA Astrophysics Data System (ADS)

    Changizi, V.; Wilkinson, S.; Hall, C. J.; Grossmann, G.

    2006-09-01

    Small angle X-ray scattering (SAXS) has the ability to provide information on a molecular and supra-molecular scale from biological tissue specimens. It has been postulated that this information will be useful in providing histopathological diagnoses for certain diseases of the breast. In this category, we include cancer, a major health problem for a number of populations around the world. So far studies in our group have been made using flash-frozen tissue samples. This limits the range and ease of use of the technique. If we were able to obtain the same information from preserved tissues then a more extensive use of SAXS diagnosis would be possible. Here we report on the first investigations into this possibility. In the research reported in this paper, 84 human breast biopsies including cancer and normal tissues were obtained from human patients. Small angle scatter data were collected at station 2.1 of the SRS at the Daresbury Laboratory, UK using a beam size of 0.25 mm 2 at the sample and a wavelength of 1.54 Å. The sample to detector distance was 2000 mm. The results verify that there is a quantifiable difference between the scatter curves from flash-frozen cancer and normal breast tissue in the range of scatter vector Q between 0.4 and 0.7 nm -1. After preserving the tissues in formalin, the difference between the normal and cancerous tissues is less marked. The preservation of the tissue in formalin can essentially mask the effects that disease would have on the tissue supra-molecular structure rendering the preserved specimens of less useful for this histopathology technique.

  5. Difference in hydration structures between F-actin and myosin subfragment-1 detected by small-angle X-ray and neutron scattering.

    PubMed

    Matsuo, Tatsuhito; Arata, Toshiaki; Oda, Toshiro; Fujiwara, Satoru

    2013-01-01

    Hydration structures around F-actin and myosin subfragment-1 (S1), which play central roles as counterparts in muscle contraction, were investigated by small-angle X-ray scattering (SAXS) and small-angle neutron scattering (SANS). The radius of gyration of chymotryptic S1 was evaluated to be 41.3±1.1 Å for SAXS, 40.1±3.0 Å for SANS in H2O, and 37.8±0.8 Å for SANS in D2O, respectively. The values of the cross-sectional radius of gyration of F-actin were 25.4±0.03 Å for SAXS, 23.4±2.4 Å for SANS in H2O, and 22.6 ± 0.6 Å for SANS in D2O, respectively. These differences arise from different contributions of the hydration shell to the scattering curves. Analysis by model calculations showed that the hydration shell of S1 has the average density 10-15% higher than bulk water, being the typical hydration shell. On the other hand, the hydration shell of F-actin has the average density more than 19% higher than bulk water, indicating that F-actin has a denser, unusual hydration structure. The results indicate a difference in the hydration structures around F-actin and S1. The unusual hydration structure around F-actin may have the structural property of so-called "hyper-mobile water" around F-actin.

  6. In Situ Synchrotron X-Ray Diffraction and Small Angle X-Ray Scattering Studies on Rapidly Heated and Cooled Ti-Al and Al-Cu-Mg Alloys Using Laser-Based Heating

    NASA Astrophysics Data System (ADS)

    Kenel, C.; Schloth, P.; Van Petegem, S.; Fife, J. L.; Grolimund, D.; Menzel, A.; Van Swygenhoven, H.; Leinenbach, C.

    2016-03-01

    Beam-based additive manufacturing (AM) typically involves high cooling rates in a range of 103-104 K/s. Therefore, new techniques are required to understand the non-equilibrium evolution of materials at appropriate time scales. Most technical alloys have not been optimized for such rapid solidification, and microstructural, phase, and elemental solubility behavior can be very different. In this work, the combination of complementary in situ synchrotron micro-x-ray diffraction (microXRD) and small angle x-ray scattering (SAXS) studies with laser-based heating and rapid cooling is presented as an approach to study alloy behavior under processing conditions similar to AM techniques. In rapidly solidified Ti-48Al, the full solidification and phase transformation sequences are observed using microXRD with high temporal resolution. The high cooling rates are achieved by fast heat extraction. Further, the temperature- and cooling rate-dependent precipitation of sub-nanometer clusters in an Al-Cu-Mg alloy can be studied by SAXS. The sensitivity of SAXS on the length scales of the newly formed phases allows their size and fraction to be determined. These techniques are unique tools to help provide a deeper understanding of underlying alloy behavior and its influence on resulting microstructures and properties after AM. Their availability to materials scientists is crucial for both in-depth investigations of novel alloys and also future production of high-quality parts using AM.

  7. Effects of the environmental factors on the casein micelle structure studied by cryo transmission electron microscopy and small-angle x-ray scattering/ultrasmall-angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Marchin, Stéphane; Putaux, Jean-Luc; Pignon, Frédéric; Léonil, Joëlle

    2007-01-01

    Casein micelles are colloidal protein-calcium-transport complexes whose structure has not been unequivocally elucidated. This study used small-angle x-ray scattering (SAXS) and ultrasmall angle x-ray scattering (USAXS) as well as cryo transmission electron microscopy (cryo-TEM) to provide fine structural details on their structure. Cryo-TEM observations of native casein micelles fractionated by differential centrifugation showed that colloidal calcium phosphate appeared as nanoclusters with a diameter of about 2.5nm. They were uniformly distributed in a homogeneous tangled web of caseins and were primarily responsible for the intensity distribution in the SAXS profiles at the highest q vectors corresponding to the internal structure of the casein micelles. A specific demineralization of casein micelles by decreasing the pH from 6.7 to 5.2 resulted in a reduced granular aspect of the micelles observed by cryo-TEM and the existence of a characteristic point of inflection in SAXS profiles. This supports the hypothesis that the smaller substructures detected by SAXS are colloidal calcium phosphate nanoclusters rather than putative submicelles.

  8. The Importance of Protein-Protein Interactions on the pH-Induced Conformational Changes of Bovine Serum Albumin: A Small-Angle X-Ray Scattering Study

    PubMed Central

    Barbosa, Leandro R.S.; Ortore, Maria Grazia; Spinozzi, Francesco; Mariani, Paolo; Bernstorff, Sigrid; Itri, Rosangela

    2010-01-01

    Abstract The combined effects of concentration and pH on the conformational states of bovine serum albumin (BSA) are investigated by small-angle x-ray scattering. Serum albumins, at physiological conditions, are found at concentrations of ∼35–45 mg/mL (42 mg/mL in the case of humans). In this work, BSA at three different concentrations (10, 25, and 50 mg/mL) and pH values (2.0–9.0) have been studied. Data were analyzed by means of the Global Fitting procedure, with the protein form factor calculated from human serum albumin (HSA) crystallographic structure and the interference function described, considering repulsive and attractive interaction potentials within a random phase approximation. Small-angle x-ray scattering data show that BSA maintains its native state from pH 4.0 up to 9.0 at all investigated concentrations. A pH-dependence of the absolute net protein charge is shown and the charge number per BSA is quantified to 10(2), 8(1), 13(2), 20(2), and 26(2) for pH values 4.0, 5.4, 7.0, 8.0, and 9.0, respectively. The attractive potential diminishes as BSA concentration increases. The coexistence of monomers and dimers is observed at 50 mg/mL and pH 5.4, near the BSA isoelectric point. Samples at pH 2.0 show a different behavior, because BSA overall shape changes as a function of concentration. At 10 mg/mL, BSA is partially unfolded and a strong repulsive protein-protein interaction occurs due to the high amount of exposed charge. At 25 and 50 mg/mL, BSA undergoes some re-folding, which likely results in a molten-globule state. This work concludes by confirming that the protein concentration plays an important role on the pH-unfolded BSA state, due to a delicate compromise between interaction forces and crowding effects. PMID:20085727

  9. How Large is an [alpha]-Helix? Studies of the Radii of Gyration of Helical Peptides by Small-angle X-ray Scattering and Molecular Dynamics

    SciTech Connect

    Zagrovic, Bojan; Jayachandran, Guha; Millett, Ian S.; Doniach, Sebastian; Pande, Vijay S.

    2010-11-30

    Using synchrotron radiation and the small-angle X-ray scattering technique we have measured the radii of gyration of a series of alanine-based alpha-helix-forming peptides of the composition Ace-(AAKAA)(n)-GY-NH(2), n=2-7, in aqueous solvent at 10(+/-1) degrees C. In contrast to other techniques typically used to study alpha-helices in isolation (such as nuclear magnetic resonance and circular dichroism), small-angle X-ray scattering reports on the global structure of a molecule and, as such, provides complementary information to these other, more sequence-local measuring techniques. The radii of gyration that we measure are, except for the 12-mer, lower than the radii of gyration of ideal alpha-helices or helices with frayed ends of the equivalent sequence-length. For example, the measured radius of gyration of the 37-mer is 14.2(+/-0.6)A, which is to be compared with the radius of gyration of an ideal 37-mer alpha-helix of 17.6A. Attempts are made to analyze the origin of this discrepancy in terms of the analytical Zimm-Bragg-Nagai (ZBN) theory, as well as distributed computing explicit solvent molecular dynamics simulations using two variants of the AMBER force-field. The ZBN theory, which treats helices as cylinders connected by random walk segments, predicts markedly larger radii of gyration than those measured. This is true even when the persistence length of the random walk parts is taken to be extremely short (about one residue). Similarly, the molecular dynamics simulations, at the level of sampling available to us, give inaccurate values of the radii of gyration of the molecules (by overestimating them by around 25% for longer peptides) and/or their helical content. We conclude that even at the short sequences examined here (< or =37 amino acid residues), these alpha-helical peptides behave as fluctuating semi-broken rods rather than straight cylinders with frayed ends.

  10. The structure of human apolipoprotein A-IV as revealed by stable isotope-assisted cross-linking, molecular dynamics, and small angle x-ray scattering.

    PubMed

    Walker, Ryan G; Deng, Xiaodi; Melchior, John T; Morris, Jamie; Tso, Patrick; Jones, Martin K; Segrest, Jere P; Thompson, Thomas B; Davidson, W Sean

    2014-02-28

    Apolipoprotein (apo)A-IV plays important roles in dietary lipid and glucose metabolism, and knowledge of its structure is required to fully understand the molecular basis of these functions. However, typical of the entire class of exchangeable apolipoproteins, its dynamic nature and affinity for lipid has posed challenges to traditional high resolution structural approaches. We previously reported an x-ray crystal structure of a dimeric truncation mutant of apoA-IV, which showed a unique helix-swapping molecular interface. Unfortunately, the structures of the N and C termini that are important for lipid binding were not visualized. To build a more complete model, we used chemical cross-linking to derive distance constraints across the full-length protein. The approach was enhanced with stable isotope labeling to overcome ambiguities in determining molecular span of the cross-links given the remarkable similarities in the monomeric and dimeric apoA-IV structures. Using 51 distance constraints, we created a starting model for full-length monomeric apoA-IV and then subjected it to two modeling approaches: (i) molecular dynamics simulations and (ii) fitting to small angle x-ray scattering data. This resulted in the most detailed models yet for lipid-free monomeric or dimeric apoA-IV. Importantly, these models were of sufficient detail to direct the experimental identification of new functional residues that participate in a "clasp" mechanism to modulate apoA-IV lipid affinity. The isotope-assisted cross-linking approach should prove useful for further study of this family of apolipoproteins in both the lipid-free and -bound states. PMID:24425874

  11. Small-angle X-ray Scattering Studies of the Oligomeric State and Quaternary Structure of the Trifunctional Proline Utilization A (PutA) Flavoprotein from Escherichia coli*

    PubMed Central

    Singh, Ranjan K.; Larson, John D.; Zhu, Weidong; Rambo, Robert P.; Hura, Greg L.; Becker, Donald F.; Tanner, John J.

    2011-01-01

    The trifunctional flavoprotein proline utilization A (PutA) links metabolism and gene regulation in Gram-negative bacteria by catalyzing the two-step oxidation of proline to glutamate and repressing transcription of the proline utilization regulon. Small-angle x-ray scattering (SAXS) and domain deletion analysis were used to obtain solution structural information for the 1320-residue PutA from Escherichia coli. Shape reconstructions show that PutA is a symmetric V-shaped dimer having dimensions of 205 × 85 × 55 Å. The particle consists of two large lobes connected by a 30-Å diameter cylinder. Domain deletion analysis shows that the N-terminal DNA-binding domain mediates dimerization. Rigid body modeling was performed using the crystal structure of the DNA-binding domain and a hybrid x-ray/homology model of residues 87–1113. The calculations suggest that the DNA-binding domain is located in the connecting cylinder, whereas residues 87–1113, which contain the two catalytic active sites, reside in the large lobes. The SAXS data and amino acid sequence analysis suggest that the Δ1-pyrroline-5-carboxylate dehydrogenase domains lack the conventional oligomerization flap, which is unprecedented for the aldehyde dehydrogenase superfamily. The data also provide insight into the function of the 200-residue C-terminal domain. It is proposed that this domain serves as a lid that covers the internal substrate channeling cavity, thus preventing escape of the catalytic intermediate into the bulk medium. Finally, the SAXS model is consistent with a cloaking mechanism of gene regulation whereby interaction of PutA with the membrane hides the DNA-binding surface from the put regulon thereby activating transcription. PMID:22013066

  12. Small angle x-ray scattering: Instrument development and studies of protein aggregation, cellulose hydrolysis, and the production of nanoporous metals using surfactact templates

    NASA Astrophysics Data System (ADS)

    Banuelos, Jose Leobardo

    Small angle x-ray scattering (SAXS) was used to obtain structural insights into protein aggregation, the enzymatic hydrolysis of cellulose, and the structural evolution of surfactant-templated nanoporous palladium and platinum systems during their synthesis. SAXS is bulk technique that allows probing the nanometer-scale morphology, interactions, density, and distribution of a variety of nonperiodic systems in the solid, liquid, or gaseous state. A 10-meter Small Angle Scattering camera, originally at ORNL, was assembled. During its re-commissioning, several upgrades were made including new data acquisition software built using National Instrument's Labview development environment, as well as portability to use analysis tools in wide use in scattering community. The Multiple Energy Diffractometer Using Small, medium and wide Angles (MEDUSA) was designed and built, its development will be discussed. The ability of proteins to change their conformation in response to changes in pressure, temperature, the presence of other molecular species, and ionic concentration in the solvents they are found, is a remarkable phenomenon that allows living cells to function properly. When proteins irreversibly unfold or mis-fold and aggregate this gives rise to severely debilitating diseases such as Alzheimer's and prion diseases. Protein aggregation was measured using SAXS on aqueous solutions of bovine serum albumin, myoglobin, and cellulase enzymes. Understanding how cellulose can be broken down into fermentable sugars is an important step in the development of strategies for producing alternative energy from biomass. The enzymatic hydrolysis of cellulose was studied using both small angle neutron scattering and SAXS. One result from these investigations was finding supporting evidence that nanopores within the cellulose fibril matrix allow biologically active enzymes access to digest parts of the fibers. The production of mesoporous materials for hydrogen storage applications was

  13. ON THE X-RAY OUTBURSTS OF TRANSIENT ANOMALOUS X-RAY PULSARS AND SOFT GAMMA-RAY REPEATERS

    SciTech Connect

    Cal Latin-Small-Letter-Dotless-I skan, Sirin; Ertan, Uenal

    2012-10-20

    We show that the X-ray outburst light curves of four transient anomalous X-ray pulsars (AXPs) and soft gamma-ray repeaters (SGRs), namely, XTE J1810-197, SGR 0501+4516, SGR 1627-41, and CXOU J164710.2-455216, can be produced by the fallback disk model that was also applied to the outburst light curves of persistent AXPs and SGRs in our earlier work. The model solves the diffusion equation for the relaxation of a disk that has been pushed back by a soft gamma-ray burst. The sets of main disk parameters used for these transient sources are very similar to each other and to those employed in our earlier models of persistent AXPs and SGRs. There is a characteristic difference between the X-ray outburst light curves of transient and persistent sources. This can be explained by the differences in the disk surface density profiles of the transient and persistent sources in quiescence indicated by their quiescent X-ray luminosities. Our results imply that a viscous disk instability operating at a critical temperature in the range of {approx}1300-2800 K is a common property of all fallback disks around AXPs and SGRs. The effect of the instability is more pronounced and starts earlier for the sources with lower quiescent luminosities, which leads to the observable differences in the X-ray enhancement light curves of transient and persistent sources. A single active disk model with the same basic disk parameters can account for the enhancement phases of both transient and persistent AXPs and SGRs. We also present a detailed parameter study to show the effects of disk parameters on the evolution of the X-ray luminosity of AXPs and SGRs in the X-ray enhancement phases.

  14. Implementation and performance of SIBYLS: a dual endstation small-angle X-ray scattering and macromolecular crystallography beamline at the Advanced Light Source.

    PubMed

    Classen, Scott; Hura, Greg L; Holton, James M; Rambo, Robert P; Rodic, Ivan; McGuire, Patrick J; Dyer, Kevin; Hammel, Michal; Meigs, George; Frankel, Kenneth A; Tainer, John A

    2013-02-01

    The SIBYLS beamline (12.3.1) of the Advanced Light Source at Lawrence Berkeley National Laboratory, supported by the US Department of Energy and the National Institutes of Health, is optimized for both small-angle X-ray scattering (SAXS) and macromolecular crystallography (MX), making it unique among the world's mostly SAXS or MX dedicated beamlines. Since SIBYLS was commissioned, assessments of the limitations and advantages of a combined SAXS and MX beamline have suggested new strategies for integration and optimal data collection methods and have led to additional hardware and software enhancements. Features described include a dual mode monochromator [containing both Si(111) crystals and Mo/B(4)C multilayer elements], rapid beamline optics conversion between SAXS and MX modes, active beam stabilization, sample-loading robotics, and mail-in and remote data collection. These features allow users to gain valuable insights from both dynamic solution scattering and high-resolution atomic diffraction experiments performed at a single synchrotron beamline. Key practical issues considered for data collection and analysis include radiation damage, structural ensembles, alternative conformers and flexibility. SIBYLS develops and applies efficient combined MX and SAXS methods that deliver high-impact results by providing robust cost-effective routes to connect structures to biology and by performing experiments that aid beamline designs for next generation light sources. PMID:23396808

  15. Implementation and performance of SIBYLS: a dual endstation small-angle X-ray scattering and macromolecular crystallography beamline at the Advanced Light Source

    PubMed Central

    Classen, Scott; Hura, Greg L.; Holton, James M.; Rambo, Robert P.; Rodic, Ivan; McGuire, Patrick J.; Dyer, Kevin; Hammel, Michal; Meigs, George; Frankel, Kenneth A.; Tainer, John A.

    2013-01-01

    The SIBYLS beamline (12.3.1) of the Advanced Light Source at Lawrence Berkeley National Laboratory, supported by the US Department of Energy and the National Institutes of Health, is optimized for both small-angle X-ray scattering (SAXS) and macromolecular crystallography (MX), making it unique among the world’s mostly SAXS or MX dedicated beamlines. Since SIBYLS was commissioned, assessments of the limitations and advantages of a combined SAXS and MX beamline have suggested new strategies for integration and optimal data collection methods and have led to additional hardware and software enhancements. Features described include a dual mode monochromator [containing both Si(111) crystals and Mo/B4C multilayer elements], rapid beamline optics conversion between SAXS and MX modes, active beam stabilization, sample-loading robotics, and mail-in and remote data collection. These features allow users to gain valuable insights from both dynamic solution scattering and high-resolution atomic diffraction experiments performed at a single synchrotron beamline. Key practical issues considered for data collection and analysis include radiation damage, structural ensembles, alternative conformers and flexibility. SIBYLS develops and applies efficient combined MX and SAXS methods that deliver high-impact results by providing robust cost-effective routes to connect structures to biology and by performing experiments that aid beamline designs for next generation light sources. PMID:23396808

  16. Small-angle x-ray scattering studies of microvoids in amorphous-silicon-based semiconductors. Annual subcontract report, February 1, 1992--January 31, 1993

    SciTech Connect

    Williamson, D L; Jones, S J; Chen, Y

    1994-05-01

    Our general objectives are to provide new details of the microstructure for the size scale from about 1 to 30 nm in high-quality a-Si:H and related alloys prepared by current state-of-the-art deposition methods as well as by new and emerging deposition technologies and thereby help determine the role of microvoids and other density fluctuations in controlling the opto-electronic properties. More specifically, the objectives are to determine whether the presence of microstructure as detected by small-angle x-ray scattering (SAXS) (1) limits the photovoltaic properties of device-quality a-Si:H, (2) plays a role in determining the photo-stability of a-Si:H, and (3) is responsible for degradation of the photovoltaic properties due to alloying with Ge, C and other constituents. The approach involves collaboration with several groups that can supply relevant systematic sets of samples and the associated opto-electronic data to help address these issues. Since the SAXS technique has not been a standard characterization technique for thin-film materials, and was recently set up at CSM with support by NREL, the project involves considerable development of the method with regard to standardizing the procedures, minimizing substrate influences and implementing improved data reduction and modeling methodology. Precise, highly reproducible, and accurate results are being sought in order to allow useful, reliable, and sensitive comparisons of materials deposited under different conditions, by different methods, and by different systems that represent the same nominal method.

  17. Small-angle x-ray scattering studies of microvoids in amorphous silicon-based semiconductors. Annual subcontract report, 1 February 1992--31 January 1993

    SciTech Connect

    Williamson, D.L.; Jones, S.J.; Chen, Y.

    1994-06-01

    This report describes work to provide now details of the microstructure for the size scale from about 1 nm to 30 nm in high-quality a-Si:H and related alloys prepared by current state-of-the-art deposition methods as well as by now and emerging deposition technologies to help determine the role of microvoids and other density fluctuations in controlling the opto-electronic properties. The objectives are to determine whether the presence of microstructure as detected by small-angle X-ray scattering (SAXS) (1) limits the photovoltaic (PV) properties of device-quality a-Si:H; (2) plays a role in determine the photostability of a-Si:H; and (3) is responsible for degradation of the PV properties due to alloying with Ge, C, and other constituents. We collaborated with several groups that can supply relevant systematic sets of samples and the associated opto-electronic data to help address these issues. The project also included developing a method to standardize the procedures, minimize substrate influences, and implement improved data reduction and modeling methodology.

  18. Small-Angle X-ray Scattering and Single-Molecule FRET Spectroscopy Produce Highly Divergent Views of the Low-Denaturant Unfolded State

    SciTech Connect

    Yoo, Tae Yeon; Meisburger, Steve P.; Hinshaw, James; Pollack, Lois; Haran, Gilad; Sosnick, Tobin R.; Plaxco, Kevin

    2012-10-10

    The results of more than a dozen single-molecule Foerster resonance energy transfer (smFRET) experiments suggest that chemically unfolded polypeptides invariably collapse from an expanded random coil to more compact dimensions as the denaturant concentration is reduced. In sharp contrast, small-angle X-ray scattering (SAXS) studies suggest that, at least for single-domain proteins at non-zero denaturant concentrations, such compaction may be rare. Here, we explore this discrepancy by studying protein L, a protein previously studied by SAXS (at 5 C), which suggested fixed unfolded-state dimensions from 1.4 to 5 M guanidine hydrochloride (GuHCl), and by smFRET (at 25 C), which suggested that, in contrast, the chain contracts by 15-30% over this same denaturant range. Repeating the earlier SAXS study under the same conditions employed in the smFRET studies, we observe little, if any, evidence that the unfolded state of protein L contracts as the concentration of GuHCl is reduced. For example, scattering profiles (and thus the shape and dimensions) collected within {approx} 4 ms after dilution to as low as 0.67 M GuHCl are effectively indistinguishable from those observed at equilibrium at higher denaturant. Our results thus argue that the disagreement between SAXS and smFRET is statistically significant and that the experimental evidence in favor of obligate polypeptide collapse at low denaturant cannot be considered conclusive yet.

  19. In situ ultra-small-angle X-ray scattering study under uniaxial stretching of colloidal crystals prepared by silica nanoparticles bearing hydrogen-bonding polymer grafts.

    PubMed

    Ishige, Ryohei; Williams, Gregory A; Higaki, Yuji; Ohta, Noboru; Sato, Masugu; Takahara, Atsushi; Guan, Zhibin

    2016-05-01

    A molded film of single-component polymer-grafted nanoparticles (SPNP), consisting of a spherical silica core and densely grafted polymer chains bearing hydrogen-bonding side groups capable of physical crosslinking, was investigated by in situ ultra-small-angle X-ray scattering (USAXS) measurement during a uniaxial stretching process. Static USAXS revealed that the molded SPNP formed a highly oriented twinned face-centered cubic (f.c.c.) lattice structure with the [11-1] plane aligned nearly parallel to the film surface in the initial state. Structural analysis of in situ USAXS using a model of uniaxial deformation induced by rearrangement of the nanoparticles revealed that the f.c.c. lattice was distorted in the stretching direction in proportion to the macroscopic strain until the strain reached 35%, and subsequently changed into other f.c.c. lattices with different orientations. The lattice distortion and structural transition behavior corresponded well to the elastic and plastic deformation regimes, respectively, observed in the stress-strain curve. The attractive interaction of the hydrogen bond is considered to form only at the top surface of the shell and then plays an effective role in cross-linking between nanoparticles. The rearrangement mechanism of the nanoparticles is well accounted for by a strong repulsive interaction between the densely grafted polymer shells of neighboring particles. PMID:27158507

  20. Insights into Surface Interactions between Metal Organic Frameworks and Gases during Transient Adsorption and Diffusion by In-Situ Small Angle X-ray Scattering.

    PubMed

    Dumée, Ludovic F; He, Li; Hodgson, Peter; Kong, Lingxue

    2016-01-01

    The fabrication of molecular gas sieving materials with specific affinities for a single gas species and able to store large quantities of materials at a low or atmospheric pressure is desperately required to reduce the adverse effects of coal and oil usage in carbon capture. Fundamental understanding of the dynamic adsorption of gas, the diffusion mechanisms across thin film membranes, and the impact of interfaces play a vital role in developing these materials. In this work, single gas permeation tests across micro-porous membrane materials, based on metal organic framework crystals grown on the surface of carbon nanotubes (ZiF-8@CNT), were performed for the first time in-situ at the Australian Synchrotron on the small angle X-ray scattering beamline in order to reveal molecular sieving mechanisms and gas adsorption within the material. The results show that specific chemi-sorption of CO₂ across the ZiF-8 crystal lattices affected the morphology and unit cell parameters, while the sieving of other noble or noble like gases across the ZiF-8@CNT membranes was found to largely follow Knudsen diffusion. This work demonstrates for the first time a novel and effective technique to assess molecular diffusion at the nano-scale across sub-nano-porous materials by probing molecular flexibility across crystal lattice and single cell units.

  1. In situ ultra-small-angle X-ray scattering study under uniaxial stretching of colloidal crystals prepared by silica nanoparticles bearing hydrogen-bonding polymer grafts

    PubMed Central

    Ishige, Ryohei; Williams, Gregory A.; Higaki, Yuji; Ohta, Noboru; Sato, Masugu; Takahara, Atsushi; Guan, Zhibin

    2016-01-01

    A molded film of single-component polymer-grafted nanoparticles (SPNP), consisting of a spherical silica core and densely grafted polymer chains bearing hydrogen-bonding side groups capable of physical crosslinking, was investigated by in situ ultra-small-angle X-ray scattering (USAXS) measurement during a uniaxial stretching process. Static USAXS revealed that the molded SPNP formed a highly oriented twinned face-centered cubic (f.c.c.) lattice structure with the [11−1] plane aligned nearly parallel to the film surface in the initial state. Structural analysis of in situ USAXS using a model of uniaxial deformation induced by rearrangement of the nanoparticles revealed that the f.c.c. lattice was distorted in the stretching direction in proportion to the macroscopic strain until the strain reached 35%, and subsequently changed into other f.c.c. lattices with different orientations. The lattice distortion and structural transition behavior corresponded well to the elastic and plastic deformation regimes, respectively, observed in the stress–strain curve. The attractive interaction of the hydrogen bond is considered to form only at the top surface of the shell and then plays an effective role in cross-linking between nanoparticles. The rearrangement mechanism of the nanoparticles is well accounted for by a strong repulsive interaction between the densely grafted polymer shells of neighboring particles. PMID:27158507

  2. Small angle X-ray scattering data and structure factor fitting for the study of the quaternary structure of the spermidine N-acetyltransferase SpeG.

    PubMed

    Weigand, Steven; Filippova, Ekaterina V; Kiryukhina, Olga; Anderson, Wayne F

    2016-03-01

    Here we describe the treatment of the small-angle X-ray Scattering (SAXS) data used during SpeG quaternary structure study as part of the research article "Substrate induced allosteric change in the quaternary structure of the spermidine N-acetyltransferase SpeG" published in Journal of Molecular Biology [1]. These data were collected on two separate area detectors as separate dilution series of the SpeG and the SpeG with spermine samples along with data from their companion buffers. The data were radially integrated, corrected for incident beam variation, and scaled to absolute units. After subtraction of volume-fraction scaled buffer scattering and division by the SpeG concentration, multiple scattering curves free of an inter-molecular structure factor were derived from the dilution series. Rather than extrapolating to infinite dilution, the structure factor contribution was estimated by fitting to the full set of data provided by dividing the scattering curves of a dilution series by the curve from the most dilute sample in that series.

  3. In situ monitoring of laser-induced periodic surface structures formation on polymer films by grazing incidence small-angle X-ray scattering.

    PubMed

    Rebollar, Esther; Rueda, Daniel R; Martín-Fabiani, Ignacio; Rodríguez-Rodríguez, Álvaro; García-Gutiérrez, Mari-Cruz; Portale, Giuseppe; Castillejo, Marta; Ezquerra, Tiberio A

    2015-04-01

    The formation of laser-induced periodic surface structures (LIPSS) on model spin-coated polymer films has been followed in situ by grazing incidence small-angle X-ray scattering (GISAXS) using synchrotron radiation. The samples were irradiated at different repetition rates ranging from 1 up to 10 Hz by using the fourth harmonic of a Nd:YAG laser (266 nm) with pulses of 8 ns. Simultaneously, GISAXS patterns were acquired during laser irradiation. The variation of both the GISAXS signal with the number of pulses and the LIPSS period with laser irradiation time is revealing key kinetic aspects of the nanostructure formation process. By considering LIPSS as one-dimensional paracrystalline lattice and using a correlation found between the paracrystalline disorder parameter, g, and the number of reflections observed in the GISAXS patterns, the variation of the structural order of LIPSS can be assessed. The role of the laser repetition rate in the nanostructure formation has been clarified. For high pulse repetition rates (i.e., 10 Hz), LIPSS evolve in time to reach the expected period matching the wavelength of the irradiating laser. For lower pulse repetition rates LIPSS formation is less effective, and the period of the ripples never reaches the wavelength value. Results support and provide information on the existence of a feedback mechanism for LIPSS formation in polymer films.

  4. Extracting magnetic cluster size and its distributions in advanced perpendicular recording media with shrinking grain size using small angle x-ray scattering

    SciTech Connect

    Mehta, Virat; Ikeda, Yoshihiro; Takano, Ken; Terris, Bruce D.; Hellwig, Olav; Wang, Tianhan; Wu, Benny; Graves, Catherine; Dürr, Hermann A.; Scherz, Andreas; Stöhr, Jo

    2015-05-18

    We analyze the magnetic cluster size (MCS) and magnetic cluster size distribution (MCSD) in a variety of perpendicular magnetic recording (PMR) media designs using resonant small angle x-ray scattering at the Co L{sub 3} absorption edge. The different PMR media flavors considered here vary in grain size between 7.5 and 9.5 nm as well as in lateral inter-granular exchange strength, which is controlled via the segregant amount. While for high inter-granular exchange, the MCS increases rapidly for grain sizes below 8.5 nm, we show that for increased amount of segregant with less exchange the MCS remains relatively small, even for grain sizes of 7.5 and 8 nm. However, the MCSD still increases sharply when shrinking grains from 8 to 7.5 nm. We show evidence that recording performance such as signal-to-noise-ratio on the spin stand correlates well with the product of magnetic cluster size and magnetic cluster size distribution.

  5. Structure of Dimeric and Tetrameric Complexes of the BAR Domain Protein PICK1 Determined by Small-Angle X-Ray Scattering.

    PubMed

    Karlsen, Morten L; Thorsen, Thor S; Johner, Niklaus; Ammendrup-Johnsen, Ina; Erlendsson, Simon; Tian, Xinsheng; Simonsen, Jens B; Høiberg-Nielsen, Rasmus; Christensen, Nikolaj M; Khelashvili, George; Streicher, Werner; Teilum, Kaare; Vestergaard, Bente; Weinstein, Harel; Gether, Ulrik; Arleth, Lise; Madsen, Kenneth L

    2015-07-01

    PICK1 is a neuronal scaffolding protein containing a PDZ domain and an auto-inhibited BAR domain. BAR domains are membrane-sculpting protein modules generating membrane curvature and promoting membrane fission. Previous data suggest that BAR domains are organized in lattice-like arrangements when stabilizing membranes but little is known about structural organization of BAR domains in solution. Through a small-angle X-ray scattering (SAXS) analysis, we determine the structure of dimeric and tetrameric complexes of PICK1 in solution. SAXS and biochemical data reveal a strong propensity of PICK1 to form higher-order structures, and SAXS analysis suggests an offset, parallel mode of BAR-BAR oligomerization. Furthermore, unlike accessory domains in other BAR domain proteins, the positioning of the PDZ domains is flexible, enabling PICK1 to perform long-range, dynamic scaffolding of membrane-associated proteins. Together with functional data, these structural findings are compatible with a model in which oligomerization governs auto-inhibition of BAR domain function.

  6. Protein crowding in solution, frozen and freeze-dried states: small-angle neutron and X-ray scattering study of lysozyme/sorbitol/water systems

    NASA Astrophysics Data System (ADS)

    Krueger, Susan; Khodadadi, Sheila; Clark, Nicholas; McAuley, Arnold; Cristiglio, Viviana; Theyencheri, Narayanan; Curtis, Joseph; Shalaev, Evgenyi

    2015-03-01

    For effective preservation, proteins are often stored as frozen solutions or in glassy states using a freeze-drying process. However, aggregation is often observed after freeze-thaw or reconstitution of freeze-dried powder and the stability of the protein is no longer assured. In this study, small-angle neutron and X-ray scattering (SANS and SAXS) have been used to investigate changes in protein-protein interaction distances of a model protein/cryoprotectant system of lysozyme/sorbitol/water, under representative pharmaceutical processing conditions. The results demonstrate the utility of SAXS and SANS methods to monitor protein crowding at different stages of freezing and drying. The SANS measurements of solution samples showed at least one protein interaction peak corresponding to an interaction distance of ~ 90 Å. In the frozen state, two protein interaction peaks were observed by SANS with corresponding interaction distances at 40 Å as well as 90 Å. On the other hand, both SAXS and SANS data for freeze-dried samples showed three peaks, suggesting interaction distances ranging from ~ 15 Å to 170 Å. Possible interpretations of these interaction peaks will be discussed, as well as the role of sorbitol as a cryoprotectant during the freezing and drying process.

  7. Insights into Surface Interactions between Metal Organic Frameworks and Gases during Transient Adsorption and Diffusion by In-Situ Small Angle X-ray Scattering.

    PubMed

    Dumée, Ludovic F; He, Li; Hodgson, Peter; Kong, Lingxue

    2016-01-01

    The fabrication of molecular gas sieving materials with specific affinities for a single gas species and able to store large quantities of materials at a low or atmospheric pressure is desperately required to reduce the adverse effects of coal and oil usage in carbon capture. Fundamental understanding of the dynamic adsorption of gas, the diffusion mechanisms across thin film membranes, and the impact of interfaces play a vital role in developing these materials. In this work, single gas permeation tests across micro-porous membrane materials, based on metal organic framework crystals grown on the surface of carbon nanotubes (ZiF-8@CNT), were performed for the first time in-situ at the Australian Synchrotron on the small angle X-ray scattering beamline in order to reveal molecular sieving mechanisms and gas adsorption within the material. The results show that specific chemi-sorption of CO₂ across the ZiF-8 crystal lattices affected the morphology and unit cell parameters, while the sieving of other noble or noble like gases across the ZiF-8@CNT membranes was found to largely follow Knudsen diffusion. This work demonstrates for the first time a novel and effective technique to assess molecular diffusion at the nano-scale across sub-nano-porous materials by probing molecular flexibility across crystal lattice and single cell units. PMID:27598211

  8. Small angle X-ray scattering study of poly(N-isopropyl acrylamide) based cryogels near the volume-phase transition temperature

    NASA Astrophysics Data System (ADS)

    Chalal, Mohand; Ehrburger-Dolle, Françoise; Morfin, Isabelle; Aguilar de Armas, Maria-Rosa; López, Maria-Luisa; Bley, Françoise

    2010-10-01

    The structural modifications induced by changes in temperature are investigated by Small-Angle X-ray Scattering (SAXS) over a broad range of q-values (3.5×10-2 - 12 nm-1) in cryogels based on N-isopropylacrylamide (NIPA) and/or 2-Hydroxyethyl methacrylate-L-Lactide-Dextran (HEMA-LLA-D) macromer. Various copolymeric cryogels of these two monomers are prepared by cryopolymerization yielding macroporous gels (cryogels). For the plain pNIPA cryogel, the SAXS curves obtained at each temperature are well fitted by a sum of four equations describing respectively the scattering resulting from the gel surface (power law), from the solid-like (Guinier equation) and liquid-like (Ornstein-Zernike equation) heterogeneities and from the chain-chain correlation yielding a broad peak (pseudo-Voigt equation) in the high-q domain. The temperature dependence of the parameters obtained from the fit is analyzed and discussed. It is shown that the existence of an isoscattering (or isosbestic) point observed in pNIPA gels and in some copolymers is related to features observed by Differential Scanning Calorimetry and swelling ratio measurements.

  9. Insights into open/closed conformations of the catalytically active human guanylate kinase as investigated by small-angle X-ray scattering.

    PubMed

    Jain, Rohit; Khan, Nazimuddin; Menzel, Andreas; Rajkovic, Ivan; Konrad, Manfred; Techert, Simone

    2016-01-01

    Bio-catalysis is the outcome of a subtle interplay between internal motions in enzymes and chemical kinetics. Small-angle X-ray scattering (SAXS) investigation of an enzyme's internal motions during catalysis offers an integral view of the protein's structural plasticity, dynamics, and function, which is useful for understanding allosteric effects and developing novel medicines. Guanylate kinase (GMPK) is an essential enzyme involved in the guanine nucleotide metabolism of unicellular and multicellular organisms. It is also required for the intracellular activation of numerous antiviral and anticancer purine nucleoside analog prodrugs. Catalytically active recombinant human GMPK (hGMPK) was purified for the first time and changes in the size and shape of open/closed hGMPK were tracked by SAXS. The binding of substrates (GMP + AMPPNP or Ap5G or GMP + ADP) resulted in the compaction of size and shape of hGMPK. The structural changes between open and completely closed hGMPK conformation were confirmed by observing differences in the hGMPK secondary structures with circular dichroism spectroscopy. PMID:26446352

  10. Long-living intermediates during a lamellar to a diamond-cubic lipid phase transition: a small-angle X-ray scattering investigation.

    PubMed

    Angelov, Borislav; Angelova, Angelina; Vainio, Ulla; Garamus, Vasil M; Lesieur, Sylviane; Willumeit, Regine; Couvreur, Patrick

    2009-04-01

    To generate nanostructured vehicles with tunable internal organization, the structural phase behavior of a self-assembled amphiphilic mixture involving poly(ethylene glycol) monooleate (MO-PEG) and glycerol monooleate (MO) is studied in excess aqueous medium by time-resolved small-angle X-ray scattering (SAXS) in the temperature range from 1 to 68 degrees C. The SAXS data indicate miscibility of the two components in lamellar and nonlamellar soft-matter nanostructures. The functionalization of the MO assemblies by a MO-PEG amphiphile, which has a flexible large hydrophilic moiety, appears to hinder the epitaxial growth of a double diamond (D) cubic lattice from the lamellar (L) bilayer structure during the thermal phase transition. The incorporated MO-PEG additive is found to facilitate the formation of structural intermediates. They exhibit greater characteristic spacings and large diffusive scattering in broad temperature and time intervals. Their features are compared with those of swollen long-living intermediates in MO/octylglucoside assemblies. A conclusion can be drawn that long-living intermediate states can be equilibrium stabilized in two- or multicomponent amphiphilic systems. Their role as cubic phase precursors is to smooth the structural distortions arising from curvature mismatch between flat and curved regions. The considered MO-PEG functionalized assemblies may be useful for preparation of sterically stabilized liquid-crystalline nanovehicles for confinement of therapeutic biomolecules. PMID:19708151

  11. Magnetic-field-dependent assembly of silica-coated magnetite nanoclusters probed by Ultra-Small-Angle X-ray Scattering (USAXS)

    NASA Astrophysics Data System (ADS)

    Malik, Vikash; Suthar, Kamleshkumar J.; Mancini, Derrick C.; Ilavsky, Jan

    2014-03-01

    Colloidal suspension of the silica coated magnetic nanoclusters (MNCs) was used to study the magnetic field mediated assembly of magnetic nanoparticles. The spatial arrangement of these MNCs in colloidal suspension was studied using the ultra-small-angle X-ray scattering (USAXS) technique with magnetic field applied in directions orthogonal and parallel to the scattering vector. In situ magnetic field analysis of the USAXS scattering measurement showed anisotropic behavior that can be attributed to the formation of colloidal crystals. During magnetization, the clustered magnetic core induces a large dipole moment, and the thickness of the silica shell helps keep distance between the neighboring particles. The assembly of these hybrid nanostructured particles was found to be dependent on the strength and orientation of this external magnetic field. The dipolar chains formed of MNCs arranged themselves into colloidal crystals formed by two-dimensional magnetic sheets. The structure factor calculations suggested that the lattice parameters of these colloidal crystals can be tuned by changing the strength of the external magnetic field. These experiments shed light on the stimuli-responsive assembly of magnetic colloidal nanoparticles that leads to the creation of tunable photonic crystals.

  12. Tracking Structural Changes in Lipid-based Multicomponent Food Materials due to Oil Migration by Microfocus Small-Angle X-ray Scattering.

    PubMed

    Reinke, Svenja K; Roth, Stephan V; Santoro, Gonzalo; Vieira, Josélio; Heinrich, Stefan; Palzer, Stefan

    2015-05-13

    One of the major problems in the confectionery industry is chocolate fat blooming, that is, the formation of white defects on the chocolate surface due to fat crystals. Nevertheless, the mechanism responsible for the formation of chocolate fat blooming is not fully understood yet. Chocolate blooming is often related to the migration of lipids to the surface followed by subsequent recrystallization. Here, the migration pathway of oil into a cocoa butter matrix with different dispersed particles was investigated by employing microfocus small-angle X-ray scattering and contact angle measurements. Our results showed that the chocolate powders get wet by the oil during the migration process and that the oil is migrating into the pores within seconds. Subsequently, cocoa butter is dissolved by the oil, and thus, its characteristic crystalline structure is lost. The chemical process provoked by the dissolution is also reflected by microscopical changes of the surface morphology of chocolate model samples after several hours from the addition of oil to the sample. Finally, the surface morphology was investigated before and after oil droplet exposure and compared to that of water exposure, whereby water seems to physically migrate through the particles, namely cocoa powder, sucrose, and milk powder, which dissolve in the presence of water. PMID:25894460

  13. Using small angle X-ray scattering to investigate the variation in composition across a graduated region within an intervertebral disc prosthesis.

    PubMed

    Gwynne, J H; Cameron, R E

    2010-02-01

    The CAdisc-L is a polycarbonate urethane lumbar intervertebral disc prosthesis that aims to replicate the mechanical properties of a natural disc as closely as possible. In this work, Small Angle X-ray Scattering (SAXS) was used to investigate the variation in composition across prototype disc samples containing annulus and nucleus regions separated by a graduated region. An empirical data analysis method was developed involving the calculation of intensity ratios, since the SAXS data did not readily fit any of the standard analysis models. Calibration samples were used to quantify the variation in SAXS response with composition and a linescan method was employed to ascertain the change in composition across discs manufactured with different graduated region volumes. The graduated region width increases with the volume incorporated into it during manufacture, as expected, but the properties do not vary linearly across the graduated regions. The method developed during this work can be adapted for use with any series of polymer samples that shows a systematic variation in SAXS behaviour with composition. PMID:19756964

  14. In situ ultra-small-angle X-ray scattering study under uniaxial stretching of colloidal crystals prepared by silica nanoparticles bearing hydrogen-bonding polymer grafts

    DOE PAGESBeta

    Ishige, Ryohei; Williams, Gregory A.; Higaki, Yuji; Ohta, Noboru; Sato, Masugu; Takahara, Atsushi; Guan, Zhibin

    2016-04-19

    A molded film of single-component polymer-grafted nanoparticles (SPNP), consisting of a spherical silica core and densely grafted polymer chains bearing hydrogen-bonding side groups capable of physical crosslinking, was investigated byin situultra-small-angle X-ray scattering (USAXS) measurement during a uniaxial stretching process. Static USAXS revealed that the molded SPNP formed a highly oriented twinned face-centered cubic (f.c.c.) lattice structure with the [11-1] plane aligned nearly parallel to the film surface in the initial state. Structural analysis ofin situUSAXS using a model of uniaxial deformation induced by rearrangement of the nanoparticles revealed that the f.c.c. lattice was distorted in the stretching direction inmore » proportion to the macroscopic strain until the strain reached 35%, and subsequently changed into other f.c.c. lattices with different orientations. The lattice distortion and structural transition behavior corresponded well to the elastic and plastic deformation regimes, respectively, observed in the stress–strain curve. The attractive interaction of the hydrogen bond is considered to form only at the top surface of the shell and then plays an effective role in cross-linking between nanoparticles. The rearrangement mechanism of the nanoparticles is well accounted for by a strong repulsive interaction between the densely grafted polymer shells of neighboring particles.« less

  15. Core–Shell Structure of Monodisperse Poly(ethylene glycol)-Grafted Iron Oxide Nanoparticles Studied by Small-Angle X-ray Scattering

    PubMed Central

    2015-01-01

    The promising applications of core–shell nanoparticles in the biological and medical field have been well investigated in recent years. One remaining challenge is the characterization of the structure of the hydrated polymer shell. Here we use small-angle X-ray scattering (SAXS) to investigate iron oxide core–poly(ethylene glycol) brush shell nanoparticles with extremely high polymer grafting density. It is shown that the shell density profile can be described by a scaling model that takes into account the locally very high grafting density near the core. A good fit to a constant density region followed by a star-polymer-like, monotonously decaying density profile is shown, which could help explain the unique colloidal properties of such densely grafted core–shell nanoparticles. SAXS experiments probing the thermally induced dehydration of the shell and the response to dilution confirmed that the observed features are associated with the brush and not attributed to structure factors from particle aggregates. We thereby demonstrate that the structure of monodisperse core–shell nanoparticles with dense solvated shells can be well studied with SAXS and that different density models can be distinguished from each other. PMID:26321792

  16. Morphological transformations in the magnetite biomineralizing protein Mms6 in iron solutions: A small-angle x-ray scattering study

    SciTech Connect

    Zhang, Honghu; Liu, Xunpei; Feng, Shuren; Wang, Wenjie; Schmidt-Rohr, Klaus; Akinc, Mufit; Nilsen-Hamilton, Marit; Vaknin, David; Mallapragada, Surya

    2015-02-10

    In this study, magnetotactic bacteria that produce magnetic nanocrystals of uniform size and well-defined morphologies have inspired the use of biomineralization protein Mms6 to promote formation of uniform magnetic nanocrystals in vitro. Small angle X-ray scattering (SAXS) studies in physiological solutions reveal that Mms6 forms compact globular three-dimensional (3D) micelles (approximately 10 nm in diameter) that are, to a large extent, independent of concentration. In the presence of iron ions in the solutions, the general micellar morphology is preserved, however, with associations among micelles that are induced by iron ions. Compared with Mms6, the m2Mms6 mutant (with the sequence of hydroxyl/carboxyl containing residues in the C-terminal domain shuffled) exhibits subtle morphological changes in the presence of iron ions in solutions. The analysis of the SAXS data is consistent with a hierarchical core–corona micellar structure similar to that found in amphiphilic polymers. The addition of ferric and ferrous iron ions to the protein solution induces morphological changes in the micellar structure by transforming the 3D micelles into objects of reduced dimensionality of 2, with fractal-like characteristics (including Gaussian-chain-like) or, alternatively, platelet-like structures.

  17. Morphological transformations in the magnetite biomineralizing protein Mms6 in iron solutions: A small-angle x-ray scattering study

    DOE PAGESBeta

    Zhang, Honghu; Liu, Xunpei; Feng, Shuren; Wang, Wenjie; Schmidt-Rohr, Klaus; Akinc, Mufit; Nilsen-Hamilton, Marit; Vaknin, David; Mallapragada, Surya

    2015-02-10

    In this study, magnetotactic bacteria that produce magnetic nanocrystals of uniform size and well-defined morphologies have inspired the use of biomineralization protein Mms6 to promote formation of uniform magnetic nanocrystals in vitro. Small angle X-ray scattering (SAXS) studies in physiological solutions reveal that Mms6 forms compact globular three-dimensional (3D) micelles (approximately 10 nm in diameter) that are, to a large extent, independent of concentration. In the presence of iron ions in the solutions, the general micellar morphology is preserved, however, with associations among micelles that are induced by iron ions. Compared with Mms6, the m2Mms6 mutant (with the sequence ofmore » hydroxyl/carboxyl containing residues in the C-terminal domain shuffled) exhibits subtle morphological changes in the presence of iron ions in solutions. The analysis of the SAXS data is consistent with a hierarchical core–corona micellar structure similar to that found in amphiphilic polymers. The addition of ferric and ferrous iron ions to the protein solution induces morphological changes in the micellar structure by transforming the 3D micelles into objects of reduced dimensionality of 2, with fractal-like characteristics (including Gaussian-chain-like) or, alternatively, platelet-like structures.« less

  18. Effective interaction of charged platelets in aqueous solution: Investigations of colloid laponite suspensions by static light scattering and small-angle x-ray scattering

    SciTech Connect

    Li Li; Rosenfeldt, S.; Ballauff, M.; Harnau, L.

    2005-11-01

    We study dilute aqueous solutions of charged disklike mineral particles (laponite) by a combination of static light scattering (SLS) and small-angle x-ray scattering (SAXS). Laponite solutions are known to form gels above a certain critical concentration that must be described as nonequilibrium states. Here we focus on the investigation by SLS and SAXS at concentrations below gelation (c<0.016 g/L) and at low concentrations of added salt (0.001M and 0.005M). Thus, we have obtained the scattering function of single Laponite platelets as well as the structure factor describing their interaction at finite concentration. A detailed analysis of the combined sets of data proves that the solutions are in a well-defined equilibrium state. Moreover, this analysis demonstrates the internal consistency and accuracy of the scattering functions obtained at finite concentrations. We find that laponite particles interact through an effective pair potential that is attractive on short range but repulsive on longer range. This finding demonstrates that Laponite solutions exhibit only a limited stability at the concentration of added salt used herein. Raising the ionic strength to 0.005M already leads to slow flocculation as is evidenced from the enhanced scattering intensity at smallest scattering angles. All data strongly suggest that the gelation occurring at higher concentration is related to aggregation.

  19. Structural analysis of the yeast exosome Rrp6p–Rrp47p complex by small-angle X-ray scattering

    SciTech Connect

    Dedic, Emil; Seweryn, Paulina; Jonstrup, Anette Thyssen; Flygaard, Rasmus Koch; Fedosova, Natalya U.; Hoffmann, Søren Vrønning; Boesen, Thomas; Brodersen, Ditlev Egeskov

    2014-07-18

    Highlights: • We show that S. cerevisiae Rrp6p and Rrp47p stabilise each other in vitro. • We determine molecular envelopes of the Rrp6p–Rrp47p complex by SAXS. • Rrp47p binds at the top of the Rrp6p exonuclease domain. • Rrp47p modulates the activity of Rrp6p on a variety of RNA substrates. • Rrp47p does not affect RNA affinity by Rrp6p. - Abstract: The RNase D-type 3′–5′ exonuclease Rrp6p from Saccharomyces cerevisiae is a nuclear-specific cofactor of the RNA exosome and associates in vivo with Rrp47p (Lrp1p). Here, we show using biochemistry and small-angle X-ray scattering (SAXS) that Rrp6p and Rrp47p associate into a stable, heterodimeric complex with an elongated shape consistent with binding of Rrp47p to the nuclease domain and opposite of the HRDC domain of Rrp6p. Rrp47p reduces the exonucleolytic activity of Rrp6p on both single-stranded and structured RNA substrates without significantly altering the affinity towards RNA or the ability of Rrp6p to degrade RNA secondary structure.

  20. Insights into Surface Interactions between Metal Organic Frameworks and Gases during Transient Adsorption and Diffusion by In-Situ Small Angle X-ray Scattering

    PubMed Central

    Dumée, Ludovic F.; He, Li; Hodgson, Peter; Kong, Lingxue

    2016-01-01

    The fabrication of molecular gas sieving materials with specific affinities for a single gas species and able to store large quantities of materials at a low or atmospheric pressure is desperately required to reduce the adverse effects of coal and oil usage in carbon capture. Fundamental understanding of the dynamic adsorption of gas, the diffusion mechanisms across thin film membranes, and the impact of interfaces play a vital role in developing these materials. In this work, single gas permeation tests across micro-porous membrane materials, based on metal organic framework crystals grown on the surface of carbon nanotubes (ZiF-8@CNT), were performed for the first time in-situ at the Australian Synchrotron on the small angle X-ray scattering beamline in order to reveal molecular sieving mechanisms and gas adsorption within the material. The results show that specific chemi-sorption of CO2 across the ZiF-8 crystal lattices affected the morphology and unit cell parameters, while the sieving of other noble or noble like gases across the ZiF-8@CNT membranes was found to largely follow Knudsen diffusion. This work demonstrates for the first time a novel and effective technique to assess molecular diffusion at the nano-scale across sub-nano-porous materials by probing molecular flexibility across crystal lattice and single cell units. PMID:27598211

  1. Structure and dynamics of water in nonionic reverse micelles: a combined time-resolved infrared and small angle x-ray scattering study.

    PubMed

    van der Loop, Tibert H; Panman, Matthijs R; Lotze, Stephan; Zhang, Jing; Vad, Thomas; Bakker, Huib J; Sager, Wiebke F C; Woutersen, Sander

    2012-07-28

    We study the structure and reorientation dynamics of nanometer-sized water droplets inside nonionic reverse micelles (water/Igepal-CO-520/cyclohexane) with time-resolved mid-infrared pump-probe spectroscopy and small angle x-ray scattering. In the time-resolved experiments, we probe the vibrational and orientational dynamics of the O-D bonds of dilute HDO:H(2)O mixtures in Igepal reverse micelles as a function of temperature and micelle size. We find that even small micelles contain a large fraction of water that reorients at the same rate as water in the bulk, which indicates that the polyethylene oxide chains of the surfactant do not penetrate into the water volume. We also observe that the confinement affects the reorientation dynamics of only the first hydration layer. From the temperature dependent surface-water dynamics, we estimate an activation enthalpy for reorientation of 45 ± 9 kJ mol(-1) (11 ± 2 kcal mol(-1)), which is close to the activation energy of the reorientation of water molecules in ice. PMID:22852627

  2. Solution Structures of 2 : 1 And 1 : 1 DNA Polymerase - DNA Complexes Probed By Ultracentrifugation And Small-Angle X-Ray Scattering

    SciTech Connect

    Tang, K.H.; Niebuhr, M.; Aulabaugh, A.; Tsai, M.D.; /Ohio State U. /SLAC, SSRL

    2009-04-30

    We report small-angle X-ray scattering (SAXS) and sedimentation velocity (SV) studies on the enzyme-DNA complexes of rat DNA polymerase {beta} (Pol {beta}) and African swine fever virus DNA polymerase X (ASFV Pol X) with one-nucleotide gapped DNA. The results indicated formation of a 2 : 1 Pol {beta}-DNA complex, whereas only 1 : 1 Pol X-DNA complex was observed. Three-dimensional structural models for the 2 : 1 Pol {beta}-DNA and 1 : 1 Pol X-DNA complexes were generated from the SAXS experimental data to correlate with the functions of the DNA polymerases. The former indicates interactions of the 8 kDa 5{prime}-dRP lyase domain of the second Pol {beta} molecule with the active site of the 1 : 1 Pol {beta}-DNA complex, while the latter demonstrates how ASFV Pol X binds DNA in the absence of DNA-binding motif(s). As ASFV Pol X has no 5{prime}-dRP lyase domain, it is reasonable not to form a 2 : 1 complex. Based on the enhanced activities of the 2 : 1 complex and the observation that the 8 kDa domain is not in an optimal configuration for the 5{prime}-dRP lyase reaction in the crystal structures of the closed ternary enzyme-DNA-dNTP complexes, we propose that the asymmetric 2 : 1 Pol {beta}-DNA complex enhances the function of Pol {beta}.

  3. Solution structures of 2 : 1 and 1 : 1 DNA polymerase-DNA complexes probed by ultracentrifugation and small-angle X-ray scattering

    SciTech Connect

    Tang, Kuo-Hsiang; Niebuhr, Marc; Aulabaugh, Ann; Tsai, Ming-Daw

    2008-03-25

    We report small-angle X-ray scattering (SAXS) and sedimentation velocity (SV) studies on the enzyme-DNA complexes of rat DNA polymerase β (Pol β) and African swine fever virus DNA polymerase X (ASFV Pol X) with one-nucleotide gapped DNA. The results indicated formation of a 2 : 1 Pol β-DNA complex, whereas only 1 : 1 Pol X-DNA complex was observed. Three-dimensional structural models for the 2 : 1 Pol β-DNA and 1 : 1 Pol X-DNA complexes were generated from the SAXS experimental data to correlate with the functions of the DNA polymerases. The former indicates interactions of the 8 kDa 5'-dRP lyase domain of the second Pol β molecule with the active site of the 1 : 1 Pol β-DNA complex, while the latter demonstrates how ASFV Pol X binds DNA in the absence of DNA-binding motif(s). As ASFV Pol X has no 5'-dRP lyase domain, it is reasonable not to form a 2 : 1 complex. Based on the enhanced activities of the 2 : 1 complex and the observation that the 8 kDa domain is not in an optimal configuration for the 5'-dRP lyase reaction in the crystal structures of the closed ternary enzyme-DNA-dNTP complexes, we propose that the asymmetric 2 : 1 Pol β-DNA complex enhances the function of Pol β.

  4. Modeling particle scattering structure factor for branched bio-inspired polymers in solution: A small angle X-ray scattering study

    NASA Astrophysics Data System (ADS)

    Bonaccorsi, Lucio; Calandra, Pietro; Proverbio, Edoardo; Lombardo, Domenico

    2012-12-01

    We present a study which illustrates the modeling of the Particle Scattering Structure Factor of an hyperbranched biopolymer in water solution using the Small Angle X-ray Scattering (SAXS) data. The studied sample was a sodium carboxilate terminated poly(amidoamine) dendrimer (generation 2.5) dispersed in water medium. The experimental inter-dendrimer structure factor S(q) has been analyzed in the framework of liquid integral equation theory for charged systems in solution. From that, we derive an effective interparticle interaction composed of a screened Coulombic plus hard-sphere repulsion potential, which allows the estimation of the dendrimer effective charge Zeff. The present analysis strongly supports the finding that structures and interaction of dendrimer are strongly influenced by charge effects. As a result, this quantity can be considered as a crucial parameter for the modulation of the degree of structural organization in solution, suitable for a number of potential applications. We conclude our form factor analysis with the investigation of the long-range assembly conditions during the growth of the intermediate nanoaggregates generated by the inclusion of aluminosilicate components of zeolite 13X on the surface of dendrimers.

  5. Constrained Maximum Likelihood Estimation of Relative Abundances of Protein Conformation in a Heterogeneous Mixture from Small Angle X-Ray Scattering Intensity Measurements

    PubMed Central

    Onuk, A. Emre; Akcakaya, Murat; Bardhan, Jaydeep P.; Erdogmus, Deniz; Brooks, Dana H.; Makowski, Lee

    2015-01-01

    In this paper, we describe a model for maximum likelihood estimation (MLE) of the relative abundances of different conformations of a protein in a heterogeneous mixture from small angle X-ray scattering (SAXS) intensities. To consider cases where the solution includes intermediate or unknown conformations, we develop a subset selection method based on k-means clustering and the Cramér-Rao bound on the mixture coefficient estimation error to find a sparse basis set that represents the space spanned by the measured SAXS intensities of the known conformations of a protein. Then, using the selected basis set and the assumptions on the model for the intensity measurements, we show that the MLE model can be expressed as a constrained convex optimization problem. Employing the adenylate kinase (ADK) protein and its known conformations as an example, and using Monte Carlo simulations, we demonstrate the performance of the proposed estimation scheme. Here, although we use 45 crystallographically determined experimental structures and we could generate many more using, for instance, molecular dynamics calculations, the clustering technique indicates that the data cannot support the determination of relative abundances for more than 5 conformations. The estimation of this maximum number of conformations is intrinsic to the methodology we have used here. PMID:26924916

  6. Surface layer protein characterization by small angle x-ray scattering and a fractal mean force concept: From protein structure to nanodisk assemblies

    SciTech Connect

    Horejs, Christine; Pum, Dietmar; Sleytr, Uwe B.; Peterlik, Herwig; Jungbauer, Alois; Tscheliessnig, Rupert

    2010-11-07

    Surface layers (S-layers) are the most commonly observed cell surface structure of prokaryotic organisms. They are made up of proteins that spontaneously self-assemble into functional crystalline lattices in solution, on various solid surfaces, and interfaces. While classical experimental techniques failed to recover a complete structural model of an unmodified S-layer protein, small angle x-ray scattering (SAXS) provides an opportunity to study the structure of S-layer monomers in solution and of self-assembled two-dimensional sheets. For the protein under investigation we recently suggested an atomistic structural model by the use of molecular dynamics simulations. This structural model is now refined on the basis of SAXS data together with a fractal assembly approach. Here we show that a nondiluted critical system of proteins, which crystallize into monomolecular structures, might be analyzed by SAXS if protein-protein interactions are taken into account by relating a fractal local density distribution to a fractal local mean potential, which has to fulfill the Poisson equation. The present work demonstrates an important step into the elucidation of the structure of S-layers and offers a tool to analyze the structure of self-assembling systems in solution by means of SAXS and computer simulations.

  7. The new NCPSS BL19U2 beamline at the SSRF for small-angle X-ray scattering from biological macromolecules in solution1

    PubMed Central

    Li, Na; Li, Xiuhong; Wang, Yuzhu; Liu, Guangfeng; Zhou, Ping; Wu, Hongjin; Hong, Chunxia; Bian, Fenggang; Zhang, Rongguang

    2016-01-01

    The beamline BL19U2 is located in the Shanghai Synchrotron Radiation Facility (SSRF) and is its first beamline dedicated to biological material small-angle X-ray scattering (BioSAXS). The electrons come from an undulator which can provide high brilliance for the BL19U2 end stations. A double flat silicon crystal (111) monochromator is used in BL19U2, with a tunable monochromatic photon energy ranging from 7 to 15 keV. To meet the rapidly growing demands of crystallographers, biochemists and structural biologists, the BioSAXS beamline allows manual and automatic sample loading/unloading. A Pilatus 1M detector (Dectris) is employed for data collection, characterized by a high dynamic range and a short readout time. The highly automated data processing pipeline SASFLOW was integrated into BL19U2, with help from the BioSAXS group of the European Molecular Biology Laboratory (EMBL, Hamburg), which provides a user-friendly interface for data processing. The BL19U2 beamline was officially opened to users in March 2015. To date, feedback from users has been positive and the number of experimental proposals at BL19U2 is increasing. A description of the new BioSAXS beamline and the setup characteristics is given, together with examples of data obtained. PMID:27738413

  8. Small-angle x-ray scattering studies of microvoids in amorphous-silicon-based semiconductors. Final subcontract report, 1 February 1991--31 January 1994

    SciTech Connect

    Williamson, D.L.; Jone, S.J.; Chen, Y.

    1994-07-01

    This report describes work performed to provide new details of the microstructure for the size scale from about 1 nm to 30 nm in high-quality hydrogenated amorphous-silicon and related alloys prepared by current state-of-the-art deposition methods as well as by new and emerging deposition technologies. The purpose of this work is to help determine the role of microvoids and other density fluctuations in controlling the opto-electronic and photovoltaic properties. The approach involved collaboration with several groups that supplied relevant systematic sets of samples and the associated opto-electronic/photovoltaic data to help address particular issues. The small-angle X-ray scattering (SAXS) technique, as developed during this project, was able to provide microstructural information with a high degree of sensitivity not available from other methods. It is particularly sensitive to microvoids or H-rich microdomains and to the presence of oriented microstructures. The latter is readily associated with columnar-type growth and can even be observed in premature stages not detectable by transmission electron microscopy. Flotation density measurements provided important complementary data. Systematic correlations demonstrated that material with more SAXS-detected microstructure has to-electronic and photovoltaic properties and increased degradation under light soaking. New results related to alloy randomness emerged from our ability to measure the difffuse scattering component of the SAXS.

  9. The location of coenzyme Q10 in phospholipid membranes made of POPE: a small-angle synchrotron X-ray diffraction study.

    PubMed

    Wollstein, Christoph; Winterhalter, Mathias; Funari, Sérgio S

    2015-07-01

    The location of coenzyme Q10 (Q10) inside the inner mitochondrial membrane is a topic of research aiming at a deeper understanding of the function of the mitochondrial respiratory chain. We investigated the location of Q10 inside model membranes made of 1-palmitoyl-2-oleoyl-phosphatidylethanolamine by means of small-angle synchrotron X-ray diffraction. Q10, which stands for ubiquinone-10 (UQ) or ubihydroquinone-10 (UH), did not remarkably influence the main phase transition temperature, but significantly decreased the lamellar-inverse hexagonal phase transition temperature (T(h)). The effect of UH on T(h) was stronger than the effect of UQ and the effect of liquid Q10 on T(h) was stronger than the effect of crystalline Q10. In the presence of Q10, the lattice parameters of the lamellar phases remained unchanged, whereas the H II lattice parameter was clearly influenced: While UQ had an increasing effect, UH had a decreasing effect. Furthermore, Q10 prevented the formation of cubic phases. The results give new evidence that the headgroup of Q10 is distant from the center of the membrane, which might be important for the function of the mitochondrial respiratory chain.

  10. Measuring the molecular dimensions of wine tannins: comparison of small-angle X-ray scattering, gel-permeation chromatography and mean degree of polymerization.

    PubMed

    McRae, Jacqui M; Kirby, Nigel; Mertens, Haydyn D T; Kassara, Stella; Smith, Paul A

    2014-07-23

    The molecular size of wine tannins can influence astringency, and yet it has been unclear as to whether the standard methods for determining average tannin molecular weight (MW), including gel-permeation chromatography (GPC) and depolymerization reactions, are actually related to the size of the tannin in wine-like conditions. Small-angle X-ray scattering (SAXS) was therefore used to determine the molecular sizes and corresponding MWs of wine tannin samples from 3 and 7 year old Cabernet Sauvignon wine in a variety of wine-like matrixes: 5-15% and 100% ethanol; 0-200 mM NaCl and pH 3.0-4.0, and compared to those measured using the standard methods. The SAXS results indicated that the tannin samples from the older wine were larger than those of the younger wine and that wine composition did not greatly impact on tannin molecular size. The average tannin MWs as determined by GPC correlated strongly with the SAXS results, suggesting that this method does give a good indication of tannin molecular size in wine-like conditions. The MW as determined from the depolymerization reactions did not correlate as strongly with the SAXS results. To our knowledge, SAXS measurements have not previously been attempted for wine tannins.

  11. Small-angle X-ray scattering study of the ATP modulation of the structural features of the nucleotide binding domains of the CFTR in solution.

    PubMed

    Galeno, Lauretta; Galfrè, Elena; Moran, Oscar

    2011-07-01

    Nucleotide binding domains (NBD1 and NBD2) of the cystic fibrosis transmembrane conductance (CFTR), the defective protein in cystic fibrosis, are responsible for controlling the gating of the chloride channel and are the putative binding site for several candidate drugs in the disease treatment. We studied the structural properties of recombinant NBD1, NBD2, and an equimolar NBD1/NBD2 mixture in solution by small-angle X-ray scattering. We demonstrated that NBD1 or NBD2 alone have an overall structure similar to that observed for crystals. Application of 2 mM ATP induces a dimerization of NBD1 but does not modify the NBD2 monomeric conformation. An equimolar mixture of NBD1/NBD2 in solution shows a dimeric conformation, and the application of ATP to the solution causes a conformational change in the NBD1/NBD2 complex into a tight heterodimer. We hypothesize that a similar conformation change occurs in situ and that transition is part of the gating mechanism. To our knowledge, this is the first direct observation of a conformational change of the NBD1/NBD2 interaction by ATP. This information may be useful to understand the physiopathology of cystic fibrosis.

  12. Structure of Immune Stimulating Complex Matrices and Immune Stimulating Complexes in Suspension Determined by Small-Angle X-Ray Scattering

    PubMed Central

    Pedersen, Jan Skov; Oliveira, Cristiano L.P.; Hübschmann, Henriette Baun; Arleth, Lise; Manniche, Søren; Kirkby, Nicolai; Nielsen, Hanne Mørck

    2012-01-01

    Immune stimulating complex (ISCOM) particles consisting of a mixture of Quil-A, cholesterol, and phospholipids were structurally characterized by small-angle x-ray scattering (SAXS). The ISCOM particles are perforated vesicles of very well-defined structures. We developed and implemented a novel (to our knowledge) modeling method based on Monte Carlo simulation integrations to describe the SAXS data. This approach is similar to the traditional modeling of SAXS data, in which a structure is assumed, the scattering intensity is calculated, and structural parameters are optimized by weighted least-squares methods when the model scattering intensity is fitted to the experimental data. SAXS data from plain ISCOM matrix particles in aqueous suspension, as well as those from complete ISCOMs (i.e., with an antigen (tetanus toxoid) incorporated) can be modeled as a polydisperse distribution of perforated bilayer vesicles with icosahedral, football, or tennis ball structures. The dominating structure is the tennis ball structure, with an outer diameter of 40 nm and with 20 holes 5–6 nm in diameter. The lipid bilayer membrane is 4.6 nm thick, with a low-electron-density, 2.0-nm-thick hydrocarbon core. Surprisingly, in the ISCOMs, the tetanus toxoid is located just below the membrane inside the particles. PMID:22677391

  13. Accurate flexible fitting of high-resolution protein structures to small-angle x-ray scattering data using a coarse-grained model with implicit hydration shell.

    PubMed

    Zheng, Wenjun; Tekpinar, Mustafa

    2011-12-21

    Small-angle x-ray scattering (SAXS) is a powerful technique widely used to explore conformational states and transitions of biomolecular assemblies in solution. For accurate model reconstruction from SAXS data, one promising approach is to flexibly fit a known high-resolution protein structure to low-resolution SAXS data by computer simulations. This is a highly challenging task due to low information content in SAXS data. To meet this challenge, we have developed what we believe to be a novel method based on a coarse-grained (one-bead-per-residue) protein representation and a modified form of the elastic network model that allows large-scale conformational changes while maintaining pseudobonds and secondary structures. Our method optimizes a pseudoenergy that combines the modified elastic-network model energy with a SAXS-fitting score and a collision energy that penalizes steric collisions. Our method uses what we consider a new implicit hydration shell model that accounts for the contribution of hydration shell to SAXS data accurately without explicitly adding waters to the system. We have rigorously validated our method using five test cases with simulated SAXS data and three test cases with experimental SAXS data. Our method has successfully generated high-quality structural models with root mean-squared deviation of 1 ∼ 3 Å from the target structures.

  14. Structure of a mouse immunoglobulin G that lacks the entire C sub H 1 domain: Protein sequencing and small-angle X-ray scattering studies

    SciTech Connect

    Igarashi, Takako; Tanaka, Toshiyuki; Nakanishi, Mamoru; Arata, Yoji ); Sato, Mamoru; Katsube, Yukiteru ); Takio, Koji )

    1990-06-19

    The structure of a short-chain IgG2a antibody, which is a member of the family of mouse anti-dansyl switch variant antibodies with identical variable regions but different heavy-chain constant regions, is reported. Amino acid sequencing analyses have demonstrated that in the short-chain IgG2a antibody the entire C{sub H}1 domain is deleted whereas the hinge region remains intact. Small-angle X-ray scattering data were collected for the short-chain IgG2a antibody and compared with those for the switch variant IgG1, IgG2a, and IgG2b antibodies with the normal heavy chain. It has been concluded that deletion of the C{sub H}1 domain results in a large structural change and the short-chain IgG2a antibody possesses an elongated molecular shape with a much smaller hinge angle as compared with the normal IgG2a antibody that is a Y-shaped molecule.

  15. Small-angle x-ray and neutron scattering studies of the volume phase transition in thermosensitive core-shell colloids

    NASA Astrophysics Data System (ADS)

    Seelenmeyer, S.; Deike, I.; Rosenfeldt, S.; Norhausen, Ch.; Dingenouts, N.; Ballauff, M.; Narayanan, T.; Lindner, P.

    2001-06-01

    The volume transition in thermosensitive colloidal core-shell particles is investigated by small-angle x-ray scattering (SAXS), small-angle Neutron scattering (SANS), and dynamic light scattering (DLS). The latex particles are dispersed in water and consist of a solid poly(styrene) core with a diameter of 100 nm. The thermosensitive shell is made up of poly(N-isopropylacrylamide) (PNIPA) chains crosslinked by 2.5 mol % N,N'-methylenbisacrylamide (BIS). Water is a good solvent for PNIPA at room temperature but becomes a poor solvent above 32 °C. The PNIPA network of the shell undergoes a volume transition at this temperature. As a result the diameter of the particle shrinks. The scattering intensities of the particles measured by SAXS and SANS as a function of temperature may be decomposed into a part deriving from the overall structure and a part originating from the fluctuations within the network. The analysis of the overall structure leads to the volume fraction of the swollen network at different temperatures. SANS in conjunction with contrast variation demonstrates that the network is confined in a well-defined shell. SAXS and SANS data therefore allow the phase diagram of the network in the shell of the particles to be derived, i.e., the average volume fraction of the network in the shell can be determined as a function of temperature. DLS corroborates this result but demonstrates that there is a small fraction of chains exceeding the outer radius derived from SAXS and SANS. The static intensity caused by the fluctuations of the network becomes the leading contribution at high scattering angles. SAXS data show that this part can be described by a Lorentzian both below and above the volume transition. The analysis demonstrates that critical fluctuations of the network around the transition temperature are fully suppressed. This finding is explained by the strong steric constraint of the network by its confinement within a shell of colloidal dimension. The

  16. β-connectin studies by small-angle x-ray scattering and single-molecule force spectroscopy by atomic force microscopy

    NASA Astrophysics Data System (ADS)

    Marchetti, S.; Sbrana, F.; Toscano, A.; Fratini, E.; Carlà, M.; Vassalli, M.; Tiribilli, B.; Pacini, A.; Gambi, C. M. C.

    2011-05-01

    The three-dimensional structure and the mechanical properties of a β-connectin fragment from human cardiac muscle, belonging to the I band, from I27 to I34, were investigated by small-angle x-ray scattering (SAXS) and single-molecule force spectroscopy (SMFS). This molecule presents an entropic elasticity behavior, associated to globular domain unfolding, that has been widely studied in the last 10 years. In addition, atomic force microscopy based SMFS experiments suggest that this molecule has an additional elastic regime, for low forces, probably associated to tertiary structure remodeling. From a structural point of view, this behavior is a mark of the fact that the eight domains in the I27-I34 fragment are not independent and they organize in solution, assuming a well-defined three-dimensional structure. This hypothesis has been confirmed by SAXS scattering, both on a diluted and a concentrated sample. Two different models were used to fit the SAXS curves: one assuming a globular shape and one corresponding to an elongated conformation, both coupled with a Coulomb repulsion potential to take into account the protein-protein interaction. Due to the predominance of the structure factor, the effective shape of the protein in solution could not be clearly disclosed. By performing SMFS by atomic force microscopy, mechanical unfolding properties were investigated. Typical sawtooth profiles were obtained and the rupture force of each unfolding domain was estimated. By fitting a wormlike chain model to each peak of the sawtooth profile, the entropic elasticity of octamer was described.

  17. Structure of the bifunctional aminoglycoside-resistance enzyme AAC(6')-Ie-APH(2'')-Ia revealed by crystallographic and small-angle X-ray scattering analysis.

    PubMed

    Smith, Clyde A; Toth, Marta; Weiss, Thomas M; Frase, Hilary; Vakulenko, Sergei B

    2014-10-01

    Broad-spectrum resistance to aminoglycoside antibiotics in clinically important Gram-positive staphylococcal and enterococcal pathogens is primarily conferred by the bifunctional enzyme AAC(6')-Ie-APH(2'')-Ia. This enzyme possesses an N-terminal coenzyme A-dependent acetyltransferase domain [AAC(6')-Ie] and a C-terminal GTP-dependent phosphotransferase domain [APH(2'')-Ia], and together they produce resistance to almost all known aminoglycosides in clinical use. Despite considerable effort over the last two or more decades, structural details of AAC(6')-Ie-APH(2'')-Ia have remained elusive. In a recent breakthrough, the structure of the isolated C-terminal APH(2'')-Ia enzyme was determined as the binary Mg2GDP complex. Here, the high-resolution structure of the N-terminal AAC(6')-Ie enzyme is reported as a ternary kanamycin/coenzyme A abortive complex. The structure of the full-length bifunctional enzyme has subsequently been elucidated based upon small-angle X-ray scattering data using the two crystallographic models. The AAC(6')-Ie enzyme is joined to APH(2'')-Ia by a short, predominantly rigid linker at the N-terminal end of a long α-helix. This α-helix is in turn intrinsically associated with the N-terminus of APH(2'')-Ia. This structural arrangement supports earlier observations that the presence of the intact α-helix is essential to the activity of both functionalities of the full-length AAC(6')-Ie-APH(2'')-Ia enzyme.

  18. Structure and optical function of amorphous photonic nanostructures from avian feather barbs: a comparative small angle X-ray scattering (SAXS) analysis of 230 bird species

    PubMed Central

    Saranathan, Vinodkumar; Forster, Jason D.; Noh, Heeso; Liew, Seng-Fatt; Mochrie, Simon G. J.; Cao, Hui; Dufresne, Eric R.; Prum, Richard O.

    2012-01-01

    Non-iridescent structural colours of feathers are a diverse and an important part of the phenotype of many birds. These colours are generally produced by three-dimensional, amorphous (or quasi-ordered) spongy β-keratin and air nanostructures found in the medullary cells of feather barbs. Two main classes of three-dimensional barb nanostructures are known, characterized by a tortuous network of air channels or a close packing of spheroidal air cavities. Using synchrotron small angle X-ray scattering (SAXS) and optical spectrophotometry, we characterized the nanostructure and optical function of 297 distinctly coloured feathers from 230 species belonging to 163 genera in 51 avian families. The SAXS data provided quantitative diagnoses of the channel- and sphere-type nanostructures, and confirmed the presence of a predominant, isotropic length scale of variation in refractive index that produces strong reinforcement of a narrow band of scattered wavelengths. The SAXS structural data identified a new class of rudimentary or weakly nanostructured feathers responsible for slate-grey, and blue-grey structural colours. SAXS structural data provided good predictions of the single-scattering peak of the optical reflectance of the feathers. The SAXS structural measurements of channel- and sphere-type nanostructures are also similar to experimental scattering data from synthetic soft matter systems that self-assemble by phase separation. These results further support the hypothesis that colour-producing protein and air nanostructures in feather barbs are probably self-assembled by arrested phase separation of polymerizing β-keratin from the cytoplasm of medullary cells. Such avian amorphous photonic nanostructures with isotropic optical properties may provide biomimetic inspiration for photonic technology. PMID:22572026

  19. {beta}-connectin studies by small-angle x-ray scattering and single-molecule force spectroscopy by atomic force microscopy

    SciTech Connect

    Marchetti, S.; Carla, M.; Gambi, C. M. C.; Sbrana, F.; Vassalli, M.; Toscano, A.; Pacini, A.; Fratini, E.; Tiribilli, B.

    2011-05-15

    The three-dimensional structure and the mechanical properties of a {beta}-connectin fragment from human cardiac muscle, belonging to the I band, from I{sub 27} to I{sub 34}, were investigated by small-angle x-ray scattering (SAXS) and single-molecule force spectroscopy (SMFS). This molecule presents an entropic elasticity behavior, associated to globular domain unfolding, that has been widely studied in the last 10 years. In addition, atomic force microscopy based SMFS experiments suggest that this molecule has an additional elastic regime, for low forces, probably associated to tertiary structure remodeling. From a structural point of view, this behavior is a mark of the fact that the eight domains in the I{sub 27}-I{sub 34} fragment are not independent and they organize in solution, assuming a well-defined three-dimensional structure. This hypothesis has been confirmed by SAXS scattering, both on a diluted and a concentrated sample. Two different models were used to fit the SAXS curves: one assuming a globular shape and one corresponding to an elongated conformation, both coupled with a Coulomb repulsion potential to take into account the protein-protein interaction. Due to the predominance of the structure factor, the effective shape of the protein in solution could not be clearly disclosed. By performing SMFS by atomic force microscopy, mechanical unfolding properties were investigated. Typical sawtooth profiles were obtained and the rupture force of each unfolding domain was estimated. By fitting a wormlike chain model to each peak of the sawtooth profile, the entropic elasticity of octamer was described.

  20. Determination of the quaternary structural states of bovine casein by small-angle X-ray scattering: submicellar and micellar forms

    SciTech Connect

    Kumosinski, T.F.; Pessen, H.; Farrell, H.M. Jr.; Brumberger, H.

    1988-11-01

    Whole casein occurs in milk as a spherical colloidal complex of protein and salts called the casein micelle, with approximate average radii of 650 A as determined by electron microscopy. Removal of Ca2+ is thought to result in dissociation into smaller noncolloidal protein complexes called submicelles. Hydrodynamic and light scattering studies on whole casein submicelles suggest that they are predominantly spherical particles with a hydrophobic core. To investigate whether the integrity of a hydrophobically stabilized submicellar structure is preserved in the electrostatically stabilized colloidal micellar structure, small-angle X-ray scattering (SAXS) experiments were undertaken on whole casein from bovine milk under submicellar and micellar conditions. All SAXS results showed multiple Gaussian character and could be analyzed best by nonlinear regression in place of the customary Guinier plot. Analysis of the SAXS data for submicellar casein showed two Gaussian components which could be interpreted in terms of a particle with two concentric regions of different electron density, designated as a compact core and a loose shell, respectively. The submicelle was found to have an average molecular weight of 285,000 +/- 14,600 and a mass fraction of higher electron density core, k, of 0.212 +/- 0.028. The radius of gyration of the core, RC, was 37.98 +/- 0.01 A with an electron density difference, delta rho C, of 0.0148 +/- 0.0014 e-/A3, while the loose region had values of RL = 88.2 +/- 0.8 A with delta rho L = 0.0091 +/- 0.0003 e-/A3. Calculated distance distribution functions and normalized scattering curves also were consistent with an overall spherical particle with a concentric spherical inner core of higher electron density. (Abstract Truncated)

  1. In-Situ Monitoring of the Microstructure of TATB-based Explosive Formulations During Temperature Cycling using Ultra-small Angle X-ray Scattering

    SciTech Connect

    Willey, T M; Hoffman, D M; van Buuren, T; Lauderbach, L; Ilavsky, J; Gee, R H; Maiti, A; Overturf, G; Fried, L

    2008-02-06

    TATB (1,3,5 triamino-2,4,6-trinitrobenzene), an extremely insensitive explosive, is used both in plastic-bonded explosives (PBXs) and as an ultra-fine pressed powder (UFTATB). With both PBXs and UFTATB, an irreversible expansion occurs with temperature cycling known as ratchet growth. In TATB-based explosives using Kel-F 800 as binder (LX-17 and PBX-9502), additional voids, sizes hundreds of nanometers to a few microns account for much of the volume expansion caused by temperature cycling. These voids are in the predicted size regime for hot-spot formation during ignition and detonation, and thus an experimental measure of these voids is important feedback for hot-spot theory and for determining the relationship between void size distributions and detonation properties. Also, understanding the mechanism of ratchet growth allows future choice of explosive/binder mixtures to minimize these types of changes to explosives, further extending PBX shelf life. This paper presents the void size distributions of LX-17, UFTATB, and PBXs using commercially available Cytop M, Cytop A, and Hyflon AD60 binders during temperature cycling between -55 C and 70 C. These void size distributions are derived from ultra-small angle x-ray scattering (USAXS), a technique sensitive to structures from about 10 nm to about 2 mm. Structures with these sizes do not appreciably change in UFTATB, indicating voids or cracks larger than a few microns appear in UFTATB during temperature cycling. Compared to Kel-F 800 binders, Cytop M and Cytop A show relatively small increases in void volume from 0.9% to 1.3% and 0.6% to 1.1%, respectively, while Hyflon fails to prevent irreversible volume expansion (1.2% to 4.6%). Computational mesoscale models of ratchet growth and binder wetting and adhesion properties point to mechanisms of ratchet growth, and are discussed in combination with the experimental results.

  2. 3D Structure of Sulfolobus solfataricus Carboxypeptidase Developed by Molecular Modeling is Confirmed by Site-Directed Mutagenesis and Small Angle X-Ray Scattering

    PubMed Central

    Occhipinti, Emanuela; Martelli, Pier Luigi; Spinozzi, Francesco; Corsi, Federica; Formantici, Cristina; Molteni, Laura; Amenitsch, Heintz; Mariani, Paolo; Tortora, Paolo; Casadio, Rita

    2003-01-01

    Sulfolobus solfataricus carboxypeptidase (CPSso) is a thermostable zinc-metalloenzyme with a Mr of 43,000. Taking into account the experimentally determined zinc content of one ion per subunit, we developed two alternative 3D models, starting from the available structures of Thermoactinomyces vulgaris carboxypeptidase (Model A) and Pseudomonas carboxypeptidase G2 (Model B). The former enzyme is monomeric and has one metal ion in the active site, while the latter is dimeric and has two bound zinc ions. The two models were computed by exploiting the structural alignment of the one zinc- with the two zinc-containing active sites of the two templates, and with a threading procedure. Both computed structures resembled the respective template, with only one bound zinc with tetrahedric coordination in the active site. With these models, two different quaternary structures can be modeled: one using Model A with a hexameric symmetry, the other from Model B with a tetrameric symmetry. Mutagenesis experiments directed toward the residues putatively involved in metal chelation in either of the models disproved Model A and supported Model B, in which the metal-binding site comprises His108, Asp109, and His168. We also identified Glu142 as the acidic residue interacting with the water molecule occupying the fourth chelation site. Furthermore, the overall fold and the oligomeric structure of the molecule was validated by small angle x-ray scattering (SAXS). An ab initio original approach was used to reconstruct the shape of the CPSso in solution from the experimental curves. The results clearly support a tetrameric structure. The Monte Carlo method was then used to compare the crystallographic coordinates of the possible quaternary structures for CPSso with the SAXS profiles. The fitting procedure showed that only the model built using the Pseudomonas carboxypeptidase G2 structure as a template fitted the experimental data. PMID:12885660

  3. DYNAMICAL OSCILLATIONS AND GLITCHES IN ANOMALOUS X-RAY PULSARS

    SciTech Connect

    Eichler, David; Shaisultanov, Rashid E-mail: rashids@bgu.ac.i

    2010-06-01

    Recently reported observations of magnetar glitches and coincident X-ray long-term brightening events establish enough of a database to indicate that the brightening events are accompanied by glitches at their outset, and that they are probably triggered by the same event that triggers the glitch. We suggest, on the basis of various observational clues, that (1) these are caused by energy releases at depths below 100 m and (2) the unpinning is due to global mechanical motion triggered by the energy release, not by heat. Because mechanical triggering of a glitch requires less energy than a detectable long-term X-ray brightening, the latter does not necessarily accompany every glitch, but it is predicted, when it does occur, to be heralded by a glitch. Crustal oscillation associated with the mechanical energy release may cause short (<<10{sup 3} s) flares.

  4. Transformation of nanodiamond into carbon onions: A comparative study by high-resolution transmission electron microscopy, electron energy-loss spectroscopy, x-ray diffraction, small-angle x-ray scattering, and ultraviolet Raman spectroscopy

    NASA Astrophysics Data System (ADS)

    Mykhaylyk, Oleksandr O.; Solonin, Yurii M.; Batchelder, David N.; Brydson, Rik

    2005-04-01

    The structural properties of both nanodiamond particles synthesized by detonation and the products of their transformation into carbon onions via vacuum annealing at 1000 and 1500°C have been studied using high-resolution transmission electron microscopy (HRTEM), electron energy-loss spectroscopy, x-ray diffraction (XRD), small-angle x-ray scattering (SAXS), and Raman spectroscopy. The advantages of UV Raman spectroscopy over visible Raman spectroscopy for the analysis of these carbon nanomaterials are demonstrated. It was found that the synthesized nanodiamond particles have a composite core-shell structure comprising an ordered diamond core covered by a disordered (amorphous) outer shell formed by the mixed sp2/sp3 bonding of carbon atoms. The observed structure of the nanodiamond particles are comparable with the structure of the bucky diamond clusters comprising a diamond core and a reconstructed surface which stabilizes the cluster at the average diameter of ˜30Å, as predicted recently from theoretical studies. Assuming a spherical shape for the particles and employing a two-step boundary model of electron density distribution developed in this work to describe the SAXS patterns produced by the core-shell structure of the nanodiamond particles, it was evaluated that the average diameter of the core is ˜30Å and the average thickness of the shell is ˜8Å; values which are in agreement with results obtained from HRTEM and XRD measurements. A discrepancy between these results and average diamond crystallite size obtained from Raman spectra by applying the phonon confinement model (35-45Å ) is discussed. It is hypothesized from analysis of broadening of the XRD diamond peaks that at the nanoscale under influence of the particle shape, which is not strictly of a cubic (or spherical) symmetry, a slight hexagonal distortion of the cubic diamond structure appears in the nanodiamond particles. The transformation of the nanodiamond into carbon onions proceeds from

  5. Edible oil structures at low and intermediate concentrations. II. Ultra-small angle X-ray scattering of in situ tristearin solids in triolein

    NASA Astrophysics Data System (ADS)

    Peyronel, Fernanda; Ilavsky, Jan; Mazzanti, Gianfranco; Marangoni, Alejandro G.; Pink, David A.

    2013-12-01

    Ultra-small angle X-ray scattering has been used for the first time to elucidate, in situ, the aggregation structure of a model edible oil system. The three-dimensional nano- to micro-structure of tristearin solid particles in triolein solvent was investigated using 5, 10, 15, and 20% solids. Three different sample preparation procedures were investigated: two slow cooling rates of 0.5°/min, case 1 (22 days of storage at room temperature) and case 2 (no storage), and one fast cooling of 30°/min, case 3 (no storage). The length scale investigated, by using the Bonse-Hart camera at beamline ID-15D at the Advanced Photon Source, Argonne National Laboratory, covered the range from 300 Å to 10 μm. The unified fit and the Guinier-Porod models in the Irena software were used to fit the data. The former was used to fit 3 structural levels. Level 1 structures showed that the primary scatterers were essentially 2-dimensional objects for the three cases. The scatterers possessed lateral dimensions between 1000 and 4300 Å. This is consistent with the sizes of crystalline nanoplatelets present which were observed using cryo-TEM. Level 2 structures were aggregates possessing radii of gyration, Rg2 between 1800 Å and 12000 Å and fractal dimensions of either D2=1 for case 3 or 1.8≤D2≤2.1 for case 1 and case 2. D2 = 1 is consistent with unaggregated 1-dimensional objects. 1.8 ≤ D2 ≤ 2.1 is consistent with these 1-dimensional objects (below) forming structures characteristic of diffusion or reaction limited cluster-cluster aggregation. Level 3 structures showed that the spatial distribution of the level 2 structures was uniform, on the average, for case 1, with fractal dimension D3≈3 while for case 2 and case 3 the fractal dimension was D3≈2.2, which suggested that the large-scale distribution had not come to equilibrium. The Guinier-Porod model showed that the structures giving rise to the aggregates with a fractal dimension given by D2 in the unified fit level 2

  6. Microstructure investigation on micropore formation in microporous silica materials prepared via a catalytic sol-gel process by small angle X-ray scattering.

    PubMed

    Shimizu, Wataru; Hokka, Junsuke; Sato, Takaaki; Usami, Hisanao; Murakami, Yasushi

    2011-08-01

    The so-called sol-gel technique has been shown to be a template-free, efficient way to create functional porous silica materials having uniform micropores. This appears to be closely linked with a postulation that the formation of weakly branched polymer-like aggregates in a precursor solution is a key to the uniform micropore generation. However, how such a polymer-like structure can precisely be controlled, and further, how the generated low-fractal dimension solution structure is imprinted on the solid silica materials still remain elusive. Here we present fabrication of microporous silica from tetramethyl orthosilicate (TMOS) using a recently developed catalytic sol-gel process based on a nonionic hydroxyacetone (HA) catalyst. Small angle X-ray scattering (SAXS), nitrogen adsorption porosimetry, and transmission electron microscope (TEM) allowed us to observe the whole structural evolution, ranging from polymer-like aggregates in the precursor solution to agglomeration with heat treatment and microporous morphology of silica powders after drying and hydrolysis. Using the HA catalyst with short chain monohydric alcohols (methanol or ethanol) in the precursor solution, polymer-like aggregates having microscopic correlation length (or mesh-size) < 2 nm and low fractal dimensions ∼2, which is identical to that of an ideal coil polymer, can selectively be synthesized, yielding the uniform micropores with diameters <2 nm in the solid materials. In contrast, the absence of HA or substitution of 1-propanol led to considerably different scattering behavior reflecting the particle-like aggregate formation in the precursor solution, which resulted in the formation of mesopores (diameter >2 nm) in the solid product due to apertures between the particle-like aggregates. The data demonstrate that the extremely fine porous silica architecture comes essentially from a gaussian polymer-like nature of the silica aggregates in the precursor having the microscopic mesh-size and

  7. ORNL_SAS: Versatile software for calculation of small-angle x-ray and neutron scattering intensity profiles from arbitrary structures

    SciTech Connect

    Heller, William T; Tjioe, Elina

    2007-01-01

    ORNL{_}SAS is software for calculating solution small-angle scattering intensity profiles from any structure provided in the Protein Data Bank format and can also compare the results with experimental data.

  8. Probing bismuth ferrite nanoparticles by hard x-ray photoemission: Anomalous occurrence of metallic bismuth

    SciTech Connect

    Chaturvedi, Smita; Rajendra, Ranguwar; Ballav, Nirmalya; Kulkarni, Sulabha; Sarkar, Indranil; Shirolkar, Mandar M.; Jeng, U-Ser; Yeh, Yi-Qi

    2014-09-08

    We have investigated bismuth ferrite nanoparticles (∼75 nm and ∼155 nm) synthesized by a chemical method, using soft X-ray (1253.6 eV) and hard X-ray (3500, 5500, and 7500 eV) photoelectron spectroscopy. This provided an evidence for the variation of chemical state of bismuth in crystalline, phase pure nanoparticles. X-ray photoelectron spectroscopy analysis using Mg Kα (1253.6 eV) source showed that iron and bismuth were present in both Fe{sup 3+} and Bi{sup 3+} valence states as expected for bismuth ferrite. However, hard X-ray photoelectron spectroscopy analysis of the bismuth ferrite nanoparticles using variable photon energies unexpectedly showed the presence of Bi{sup 0} valence state below the surface region, indicating that bismuth ferrite nanoparticles are chemically inhomogeneous in the radial direction. Consistently, small-angle X-ray scattering reveals a core-shell structure for these radial inhomogeneous nanoparticles.

  9. Edible oil structures at low and intermediate concentrations. II. Ultra-small angle X-ray scattering of in situ tristearin solids in triolein

    SciTech Connect

    Peyronel, Fernanda; Marangoni, Alejandro G.; Ilavsky, Jan; Mazzanti, Gianfranco; Pink, David A.

    2013-12-21

    Ultra-small angle X-ray scattering has been used for the first time to elucidate, in situ, the aggregation structure of a model edible oil system. The three-dimensional nano- to micro-structure of tristearin solid particles in triolein solvent was investigated using 5, 10, 15, and 20% solids. Three different sample preparation procedures were investigated: two slow cooling rates of 0.5°/min, case 1 (22 days of storage at room temperature) and case 2 (no storage), and one fast cooling of 30°/min, case 3 (no storage). The length scale investigated, by using the Bonse-Hart camera at beamline ID-15D at the Advanced Photon Source, Argonne National Laboratory, covered the range from 300 Å to 10 μm. The unified fit and the Guinier-Porod models in the Irena software were used to fit the data. The former was used to fit 3 structural levels. Level 1 structures showed that the primary scatterers were essentially 2-dimensional objects for the three cases. The scatterers possessed lateral dimensions between 1000 and 4300 Å. This is consistent with the sizes of crystalline nanoplatelets present which were observed using cryo-TEM. Level 2 structures were aggregates possessing radii of gyration, R{sub g2} between 1800 Å and 12000 Å and fractal dimensions of either D{sub 2}=1 for case 3 or 1.8≤D{sub 2}≤2.1 for case 1 and case 2. D{sub 2} = 1 is consistent with unaggregated 1-dimensional objects. 1.8 ≤ D{sub 2} ≤ 2.1 is consistent with these 1-dimensional objects (below) forming structures characteristic of diffusion or reaction limited cluster-cluster aggregation. Level 3 structures showed that the spatial distribution of the level 2 structures was uniform, on the average, for case 1, with fractal dimension D{sub 3}≈3 while for case 2 and case 3 the fractal dimension was D{sub 3}≈2.2, which suggested that the large-scale distribution had not come to equilibrium. The Guinier-Porod model showed that the structures giving rise to the aggregates

  10. Can Charge Exchange Explain Anomalous Soft X-Ray Emission in the Cygnus Loop?

    NASA Astrophysics Data System (ADS)

    Cumbee, R. S.; Henley, D. B.; Stancil, P. C.; Shelton, R. L.; Nolte, J. L.; Wu, Y.; Schultz, D. R.

    2014-06-01

    Recent X-ray studies have shown that supernova shock models are unable to satisfactorily explain X-ray emission in the rim of the Cygnus Loop. In an attempt to account for this "anomalously" enhanced X-ray flux, we fit the region with a model including theoretical charge exchange (CX) data along with shock and background X-ray models. The model includes the CX collisions of O8 +, O7 +, N7 +, N6 +, C6 +, and C5 + with H with an energy of 1 keV u-1 (438 km s-1). The observations reveal a strong emission feature near 0.7 keV that cannot fully be accounted for by a shock model, nor the current CX data. Inclusion of CX, specifically O7 + + H, does provide for a statistically significant improvement over a pure shock model.

  11. Soft Gamma Repeaters and Anomalous X-ray Pulsars: Magnetar Candidates

    NASA Technical Reports Server (NTRS)

    Woods, P. M.; Thompson, C.

    2005-01-01

    This article is a review of Soft Gamma Repeaters and Anomalous X-ray Pulsars. It contains a brief historical record of the emergence of these classes of neutron stars, a thorough overview of the observational data, a succinct summary of the magnetar model, and suggested directions for future research in this field.

  12. Structure of low-density nanoporous dielectrics revealed by low-vacuum electron microscopy and small-angle x-ray scattering

    SciTech Connect

    Kucheyev, S O; Toth, M; Baumann, T F; Hamza, A V; Ilavsky, J; Knowles, W R; Thiel, B L; Tileli, V; van Buuren, T; Wang, Y M; Willey, T M

    2006-06-05

    We use low-vacuum scanning electron microscopy to image directly the ligament and pore size and shape distributions of representative aerogels over a wide range of length scales ({approx} 10{sup 0}-10{sup 5} nm). The images are used for unambiguous, real-space interpretation of small-angle scattering data for these complex nanoporous systems.

  13. Period Clustering of the Anomalous X-Ray Pulsars and Magnetic Field Decay in Magnetars.

    PubMed

    Colpi; Geppert; Page

    2000-01-20

    We confront theoretical models for the rotational, magnetic, and thermal evolution of an ultramagnetized neutron star, or magnetar, with available data on the anomalous X-ray pulsars (AXPs). We argue that, if the AXPs are interpreted as magnetars, their clustering of spin periods between 6 and 12 s (observed at present in this class of objects), their period derivatives, their thermal X-ray luminosities, and the association of two of them with young supernova remnants can only be understood globally if the magnetic field in magnetars decays significantly on a timescale of the order of 104 yr.

  14. Application of X-ray and neutron small angle scattering techniques to study the hierarchical structure of plant cell walls: a review.

    PubMed

    Martínez-Sanz, Marta; Gidley, Michael J; Gilbert, Elliot P

    2015-07-10

    Plant cell walls present an extremely complex structure of hierarchically assembled cellulose microfibrils embedded in a multi-component matrix. The biosynthesis process determines the mechanism of cellulose crystallisation and assembly, as well as the interaction of cellulose with other cell wall components. Thus, a knowledge of cellulose microfibril and bundle architecture, and the structural role of matrix components, is crucial for understanding cell wall functional and technological roles. Small angle scattering techniques, combined with complementary methods, provide an efficient approach to characterise plant cell walls, covering a broad and relevant size range while minimising experimental artefacts derived from sample treatment. Given the system complexity, approaches such as component extraction and the use of plant cell wall analogues are typically employed to enable the interpretation of experimental results. This review summarises the current research status on the characterisation of the hierarchical structure of plant cell walls using small angle scattering techniques.

  15. Searching for plasmas with anomalous dispersion in the soft X-ray regime

    SciTech Connect

    Nilsen, J; Johnson, W R; Cheng, K T

    2007-08-24

    Over the last decade the electron density of plasmas has been measured using X-ray laser interferometers in the 14 to 47 nm wavelength regime. With the same formula used in decades of experiments with optical interferometers, the data analysis assumes the index of refraction is due only to the free electrons, which makes the index less than one. Over the last several years, interferometer experiments in C, Al, Ag, and Sn plasmas have observed plasmas with index of refraction greater than one at 14 or 47 nm and demonstrated unequivocally that the usual formula for calculating the index of refraction is not always valid as the contribution from bound electrons can dominate the free electrons in certain cases. In this paper we search for other materials with strong anomalous dispersion that could be used in X-ray laser interferometer experiments to help understand this phenomena. An average atom code is used to calculate the plasma properties. This paper discusses the calculations of anomalous dispersion in Ne and Na plasmas near 47 nm and Xe plasmas near 14 nm. With the advent of the FLASH X-ray free electron laser in Germany and the LCLS X-FEL coming online at Stanford in 2 years the average atom code will be an invaluable tool to explore plasmas at higher X-ray energy to identify potential experiments for the future. During the next decade X-ray free electron lasers and other X-ray sources will be used to probe a wider variety of plasmas at higher densities and shorter wavelengths so understanding the index of refraction in plasmas will be even more essential.

  16. An optical counterpart to the anomalous X-ray pulsar 4U0142+61.

    PubMed

    Hulleman, F; van Kerkwijk, M H; Kulkarni, S R

    2000-12-01

    The energy source of the anomalous X-ray pulsars (AXPs) is not understood, hence their designation as anomalous. Unlike binary X-ray pulsars, no companions are seen, so the energy cannot be supplied by accretion of matter from a companion star. The loss of rotational energy, which powers radio pulsars, is insufficient to power AXPs. Two models are generally considered: accretion from a large disk left over from the birth process, or decay of a very strong magnetic field (10(15) G) associated with a 'magnetar'. The lack of counterparts at other wavelengths has hampered progress in our understanding of these objects. Here we report deep optical observations of the field around 4U0142+61, which is the brightest AXP in X-rays. The source has no associated supernova remnant, which, together with its spin-down timescale of approximately 10(5) yr (ref. 5), suggests that it may be relatively old. We find an object with peculiar optical colours at the position of the X-ray source, and argue that it is the optical counterpart. The optical emission is too faint to admit the presence of a large accretion disk, but may be consistent with magnetospheric emission from a magnetar.

  17. Structural evolution of regenerated silk fibroin under shear: Combined wide- and small-angle x-ray scattering experiments using synchrotron radiation

    SciTech Connect

    Rossle, Manfred; Panine, Pierre; Urban, Volker S; Riekel, Christine

    2004-04-01

    The structural evolution of regenerated Bombyx mori silk fibroin during shearing with a Couette cell has been studied in situ by synchrotron radiation small- and wide-angle x-ray scattering techniques. An elongation of fibroin molecules was observed with increasing shear rate, followed by an aggregation phase. The aggregates were found to be amorphous with {beta}-conformation according to infrared spectroscopy. Scanning x-ray microdiffraction with a 5 {micro}m beam on aggregated material, which had solidified in air, showed silk II reflections and a material with equatorial reflections close to the silk I structure reflections, but with strong differences in reflection intensities. This silk I type material shows up to two low-angle peaks suggesting the presence of water molecules that might be intercalated between hydrogen-bonded sheets.

  18. TINY HICCUPS TO TITANIC EXPLOSIONS: Tackling Transients in Anomalous X-ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    2011-09-01

    The past decade has seen major progress in neutron star astrophysics, with the discovery of magnetars in general, and the recognition that the Anomalous X-ray Pulsars (AXPs) fall in this class. AXPs have recently revealed surprising and dramatic variability behavior, which theorists have begun to show are highly constraining of physical models of magnetars, including their crusts, atmospheres, coronae and magnetospheres. In this proposal, we request Chandra/ACIS-S Target-of-Opportunity observations of one major Anomalous X-ray Pulsar (AXP) outburst in AO13, in order to study in detail the evolution of the spectrum, pulsed fraction and pulse profile, for quantitative confrontation with recently developed models for the structure and electrodynamics of magnetars.

  19. Tiny Hiccups to Titanic Explosions: Tackling Transients in Anomalous X-Ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    We are requesting the target-of-oppurtunity (ToO) component of an ongoing, successful, long-term RXTE monitoring campaign of anomalous X- ray pulsars (AXPs). Their nature had been a mystery, but with our discoveries of X-ray bursts from AXPs, there is compelling evidence that they are young, isolated, ultra-magnetized neutron stars or "magnetars." We request ToO observations of any of the known and candidate AXPs should they exhibit anomalous behavior of one or more of the following types: bursts, significant sudden pulse profile changes, glitches or other rotational anomalies, or pulse fractions changes. These observations will allow us to answer basic physical questions about neutron star structure.

  20. TINY HICCUPS TO TITANIC EXPLOSIONS: Tackling Transients in Anomalous X-ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    2009-09-01

    The past decade has seen major progress in neutron star astrophysics, with the discovery of magnetars in general, and the recognition that the Anomalous X-ray Pulsars (AXPs) fall in this class. AXPs have recently revealed surprising and dramatic variability behavior, which theorists have begun to show are highly constraining of physical models of magnetars, including their crusts, atmospheres, coronae and magnetospheres. In this proposal, we request Chandra/ACIS-S Target-of-Opportunity observations of one major Anomalous X-ray Pulsar (AXP) outburst in A11, in order to study in detail the evolution of the spectrum, pulsed fraction and pulse profile, for quantitative confrontation with recently developed models for the structure and electrodynamics of magnetars.

  1. TINY HICCUPS TO TITANIC EXPLOSIONS: Tackling Transients in Anomalous X-ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    2008-09-01

    The past decade has seen major progress in neutron star astrophysics, with the discovery of magnetars in general, and the recognition that the Anomalous X-ray Pulsars (AXPs) fall in this class. AXPs have recently revealed surprising and dramatic variability behavior, which theorists have begun to show are highly constraining of physical models of magnetars, including their crusts, atmospheres, coronae and magnetospheres. In this proposal, we request Chandra/ACIS-S Target-of-Opportunity observations of one major Anomalous X-ray Pulsar (AXP) outburst in A10, in order to study in detail the evolution of the spectrum, pulsed fraction and pulse profile, for quantitative confrontation with recently developed models for the structure and electrodynamics of magnetars.

  2. Tiny Tremors to Titanic Explosions: Tackling Transients in Anomalous X-Ray Pulsars (core Program)

    NASA Astrophysics Data System (ADS)

    We are requesting the target-of-oppurtunity (ToO) component of an ongoing, successful, long-term RXTE monitoring campaign of anomalous X- ray pulsars (AXPs). Their nature had been a mystery, but with our discoveries of X-ray bursts from AXPs, there is compelling evidence that they are young, isolated, ultra-magnetized neutron stars or "magnetars." We request ToO observations of any of the known and candidate AXPs as well as of any newly discovered AXPs should they exhibit anomalous behavior of one or more of the following types: bursts, significant sudden pulse profile changes, glitches or other rotational anomalies, or pulse fractions changes. These observations will allow us to answer basic physical questions about neutron star structure.

  3. Tiny Tremors to Titanic Explosions: Tackling Transients in Anomalous X-Ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    We are requesting the target-of-oppurtunity (ToO) component of an ongoing, successful, long-term RXTE monitoring campaign of anomalous X- ray pulsars (AXPs). Their nature had been a mystery, but with our discoveries of X-ray bursts from AXPs, there is compelling evidence that they are young, isolated, ultra-magnetized neutron stars or "magnetars." We request ToO observations of any of the known and candidate AXPs as well as of any newly discovered AXPs should they exhibit anomalous behavior of one or more of the following types: bursts, significant sudden pulse profile changes, glitches or other rotational anomalies, or pulse fractions changes. These observations will allow us to answer basic physical questions about neutron star structure.

  4. TINY HICCUPS TO TITANIC EXPLOSIONS: Tackling Transients in Anomalous X-ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    2010-09-01

    The past decade has seen major progress in neutron star astrophysics, with the discovery of magnetars in general, and the recognition that the Anomalous X-ray Pulsars (AXPs) fall in this class. AXPs have recently revealed surprising and dramatic variability behavior, which theorists have begun to show are highly constraining of physical models of magnetars, including their crusts, atmospheres, coronae and magnetospheres. In this proposal, we request Chandra/ACIS-S Target-of-Opportunity observations of one major Anomalous X-ray Pulsar (AXP) outburst in AO12, in order to study in detail the evolution of the spectrum, pulsed fraction and pulse profile, for quantitative confrontation with recently developed models for the structure and electrodynamics of magnetars.

  5. Tiny Hiccups to Titanic Explosions: Tackling Transients in Anomalous X-Ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    We request the Target-of-Opportunity (TOO) component of an ongoing, successful, long-term RXTE monitoring campaign of anomalous X-ray pulsars (AXPs). Their nature had been a long-standing mystery, but with our discoveries of soft gamma-ray repeater-like X-ray bursts from two AXPs, there is compelling evidence that they are magnetars. We request TOO observations of any of five AXPs (and one candidate) should they exhibit anomalous behavior of one or more of the following types: bursts, significant pulse profile changes, glitches or other rotational anomalies, or pulse fractions changes. These observations will allow us to answer basic physical questions about neutron star structure and constrain the physics of magnetars.

  6. Synchrotron X-ray Imaging via Ultra-small-angle Scattering: Principles of Quantitative Analysis and Application in Studyingbone Integration to Synthetic Grafting Materials

    SciTech Connect

    Morelhao, S.; Coelho, P; Honnicke, M

    2010-01-01

    Optimized experimental conditions for extracting accurate information at subpixel length scales from analyzer-based X-ray imaging were obtained and applied to investigate bone regeneration by means of synthetic {beta}-TCP grafting materials in a rat calvaria model. The results showed a 30% growth in the particulate size due to bone ongrowth/ingrowth within the critical size defect over a 1-month healing period.

  7. The Fading of Transient Anomalous X-Ray Pulsar XTE J1810-197

    NASA Astrophysics Data System (ADS)

    Halpern, J. P.; Gotthelf, E. V.

    2005-01-01

    Three observations of the 5.54 s transient anomalous X-ray pulsar XTE J1810-197 obtained over 6 months with the Newton X-ray Multi-Mirror (XMM-Newton) mission are used to study its spectrum and pulsed light curve as the source fades from outburst. The decay is consistent with an exponential of time constant ~300 days but not a power law as predicted in some models of sudden deep crustal heating events. All spectra are well fitted by a blackbody plus a steep power law, a problematic model that is commonly fitted to anomalous X-ray pulsars (AXPs). A two-temperature blackbody fit is also acceptable and better motivated physically in view of the faint optical/IR fluxes, the X-ray pulse shapes that weakly depend on energy in XTE J1810-197, and the inferred emitting areas that are less than or equal to the surface area of a neutron star. The fitted temperatures remained the same while the flux declined by 46%, which can be interpreted as a decrease in area of the emitting regions. The pulsar continues to spin down, albeit at a reduced rate of (5.1+/-1.6)×10-12 s s-1. The inferred characteristic age τc≡P/2P~17,000 yr, magnetic field strength Bs~1.7×1014 G, and outburst properties are consistent with both the outburst and quiescent X-ray luminosities being powered by magnetic field decay, i.e., XTE J1810-197 is a magnetar.

  8. Nanometer-scale characterization of laser-driven plasmas, compression, shocks and phase transitions, by coherent small angle x-ray scattering

    NASA Astrophysics Data System (ADS)

    Kluge, Thomas

    2015-11-01

    Combining ultra-intense short-pulse and high-energy long-pulse lasers, with brilliant coherent hard X-ray FELs, such as the Helmholtz International Beamline for Extreme Fields (HIBEF) under construction at the HED Instrument of European XFEL, or MEC at LCLS, holds the promise to revolutionize our understanding of many High Energy Density Physics phenomena. Examples include the relativistic electron generation, transport, and bulk plasma response, and ionization dynamics and heating in relativistic laser-matter interactions, or the dynamics of laser-driven shocks, quasi-isentropic compression, and the kinetics of phase transitions at high pressure. A particularly promising new technique is the use of coherent X-ray diffraction to characterize electron density correlations, and by resonant scattering to characterize the distribution of specific charge-state ions, either on the ultrafast time scale of the laser interaction, or associated with hydrodynamic motion. As well one can image slight density changes arising from phase transitions inside of shock-compressed high pressure matter. The feasibility of coherent diffraction techniques in laser-driven matter will be discussed. including recent results from demonstration experiments at MEC. Among other things, very sharp density changes from laser-driven compression are observed, having an effective step width of 10 nm or smaller. This compares to a resolution of several hundred nm achievedpreviously with phase contrast imaging. and on behalf of HIBEF User Consortium, for the Helmholtz International Beamline for Extreme Fields at the European XFEL.

  9. Small-angle X-ray and neutron scattering study of Nafion-SiO2 hybrid membranes prepared in different solvent media

    NASA Astrophysics Data System (ADS)

    Dresch, M. A.; Matos, B. R.; Fonseca, F. C.; Santiago, E. I.; Carmo, M.; Lanfredi, A. J. C.; Balog, S.

    2015-01-01

    Nafion-SiO2 hybrid electrolytes were synthesized by sol-gel reaction. The homogeneity, structural properties, and proton conductivity of the hybrid membranes were studied. Small-angle scattering analyses indicate that the Nafion structural matrix was preserved on the nanoscale, and the growth of silica particles occurred both in the ionic and nonionic domains of Nafion, which resulted in hybrids with characteristic morphologies. The water uptake and the weight fraction of the inorganic phase were found to be dependent on the alcohol solvent used for the sol-gel synthesis. Nafion-silica hybrids with homogeneous distribution of the inorganic phase were obtained using methanol as the solvent for the sol-gel reaction. The observed microstructural properties of the Nafion-silica membranes were related to enhanced proton conductivity at high temperatures and low relative humidity conditions.

  10. CAN CHARGE EXCHANGE EXPLAIN ANOMALOUS SOFT X-RAY EMISSION IN THE CYGNUS LOOP?

    SciTech Connect

    Cumbee, R. S.; Henley, D. B.; Stancil, P. C.; Shelton, R. L.; Nolte, J. L.; Wu, Y.; Schultz, D. R.

    2014-06-01

    Recent X-ray studies have shown that supernova shock models are unable to satisfactorily explain X-ray emission in the rim of the Cygnus Loop. In an attempt to account for this ''anomalously'' enhanced X-ray flux, we fit the region with a model including theoretical charge exchange (CX) data along with shock and background X-ray models. The model includes the CX collisions of O{sup 8} {sup +}, O{sup 7} {sup +}, N{sup 7} {sup +}, N{sup 6} {sup +}, C{sup 6} {sup +}, and C{sup 5} {sup +} with H with an energy of 1 keV u{sup –1} (438 km s{sup –1}). The observations reveal a strong emission feature near 0.7 keV that cannot fully be accounted for by a shock model, nor the current CX data. Inclusion of CX, specifically O{sup 7} {sup +} + H, does provide for a statistically significant improvement over a pure shock model.

  11. Alkyl Chain Length and Temperature Effects on Structural Properties of Pyrrolidinium-Based Ionic Liquids: A Combined Atomistic Simulation and Small-Angle X-ray Scattering Study.

    SciTech Connect

    Li, Song; Banuelos, Jose Leo; Guo, Jianchang; Anovitz, Lawrence {Larry} M; Rother, Gernot; Shaw, Robert W; Hillesheim, Patrick C; Dai, Sheng; Baker, Gary A; Cummings, Peter T

    2011-01-01

    Molecular dynamics (MD) simulations of 1-alkyl-1-methylpyrrolidinium 12 bis(trifluoromethanesulfonyl)imide ([CnMPy][Tf2N], n = 3, 4, 6, 8, 10) were conducted 13 using an all-atom model. Radial distribution functions (RDF) were computed and structure 14 functions were generated to compare with new X-ray scattering experimental results, 15 reported herein. The scattering peaks in the structure functions generally shift to lower Q 16 values with increased temperature for all the liquids in this series. However, the first sharp 17 diffraction peak (FSDP) in the longer alkyl chain liquids displays a marked shift to higher Q 18 values with increasing temperature. Alkyl chain-dependent ordering of the polar groups and 19 increased tail aggregation with increasing alkyl chain length were observed in the partial pair 20 correlation functions and the structure functions. The reasons for the observed alkyl chain- 21 dependent phenomena and temperature effects were explored.

  12. Alkyl Chain Length and Temperature Effects on Structural Properties of Pyrrolidinium-Based Ionic Liquids: A Combined Atomistic Simulation and Small-Angle X-ray Scattering Study

    SciTech Connect

    Li, Song; Bañuelos, José Leobardo; Guo, Jianchang; Anovitz, Lawrence; Rother, Gernot; Shaw, Robert W.; Hillesheim, Patrick C.; Dai, Sheng; Baker, Gary A.; Cummings, Peter T.

    2011-12-21

    Molecular dynamics (MD) simulations of 1-alkyl-1-methylpyrrolidinium bis(trifluoromethanesulfonyl)imide ([CnMPy][Tf₂N], n = 3, 4, 6, 8, 10) were conducted using an all-atom model. Radial distribution functions (RDF) were computed and structure functions were generated to compare with new X-ray scattering experimental results, reported herein. The scattering peaks in the structure functions generally shift to lower Q values with increased temperature for all the liquids in this series. However, the first sharp diffraction peak (FSDP) in the longer alkyl chain liquids displays a marked shift to higher Q values with increasing temperature. Alkyl chain-dependent ordering of the polar groups and increased tail aggregation with increasing alkyl chain length were observed in the partial pair correlation functions and the structure functions. The reasons for the observed alkyl chain-dependent phenomena and temperature effects were explored.

  13. Outburst of the 2 s Anomalous X-ray Pulsar 1E 1547.0-5408

    NASA Technical Reports Server (NTRS)

    Halpern, J. P.; Gotthelf, E. V.; Camilo, F.; Reynolds, J.; Ransom, S. M.

    2008-01-01

    Following our discovery of radio pulsations from the newly recognized anomalous X-ray pulsar (AXP) 1E 1547.0-5408, we initiated X-ray monitoring with the Swift X-ray telescope and obtained a single target-of-opportunity observation with the Newton X-ray Multi-Mirror Mission (XMM-Newton). In comparison with its historic minimum flux of 3 x 10(exp -l3)ergs/sq cm/s, the source was found to be in a record high state, f(sub x)(1-8 keV) = 5 x 10(exp -12)ergs/sq cm/s, or L(sub x) = 1.7 x 10(exp 35)(d/9 kpc )(sup 2)ergs/s, and declining by 25% in 1 month. Extrapolating the decay, we bound the total energy in this outburst to 1042 ergs < E < ergs. The spectra (fitted with a Comptonized blackbody) show that an increase in the temperature and area of a hot region, to 0.5 keV and -16% of the surface area of the neutron star, respectively, are primarily responsible for its increase in luminosity. The energy, spectrum, and timescale of decay are consistent with a deep crustal heating event, similar to an interpretation of the X-ray turn-on of the transient AXP XTE J18 10- 197. Simultaneous with the 4.6 hr ATdA4-Newton observation, we observed at 6.4 GHz with the Parkes telescope, measuring the phase relationship of the radio and X-ray pulse. The X-ray pulsed fraction of 1E 1547.0-5408 is only approx. 7 %, while its radio pulse is relatively broad for such a slow pulsar, which may indicate a nearly aligned rotator. As also inferred from the transient behavior of XTE J18 10-197, the only other AXP known to emit in the radio, the magnetic field rearrangement responsible for this X-ray outburst of 1E 1547.0-5408 is probably the cause of its radio turn-on.

  14. Low-resolution structure of the full-length barley (Hordeum vulgare) SGT1 protein in solution, obtained using small-angle X-ray scattering.

    PubMed

    Taube, Michał; Pieńkowska, Joanna R; Jarmołowski, Artur; Kozak, Maciej

    2014-01-01

    SGT1 is an evolutionarily conserved eukaryotic protein involved in many important cellular processes. In plants, SGT1 is involved in resistance to disease. In a low ionic strength environment, the SGT1 protein tends to form dimers. The protein consists of three structurally independent domains (the tetratricopeptide repeats domain (TPR), the CHORD- and SGT1-containing domain (CS), and the SGT1-specific domain (SGS)), and two less conserved variable regions (VR1 and VR2). In the present study, we provide the low-resolution structure of the barley (Hordeum vulgare) SGT1 protein in solution and its dimer/monomer equilibrium using small-angle scattering of synchrotron radiation, ab-initio modeling and circular dichroism spectroscopy. The multivariate curve resolution least-square method (MCR-ALS) was applied to separate the scattering data of the monomeric and dimeric species from a complex mixture. The models of the barley SGT1 dimer and monomer were formulated using rigid body modeling with ab-initio structure prediction. Both oligomeric forms of barley SGT1 have elongated shapes with unfolded inter-domain regions. Circular dichroism spectroscopy confirmed that the barley SGT1 protein had a modular architecture, with an α-helical TPR domain, a β-sheet sandwich CS domain, and a disordered SGS domain separated by VR1 and VR2 regions. Using molecular docking and ab-initio protein structure prediction, a model of dimerization of the TPR domains was proposed.

  15. Small-angle x-ray scattering studies of the porosity of coals and chars. Quarterly progress report, July 1-September 30, 1980

    SciTech Connect

    Schmidt, P.W.

    1980-09-01

    Considerable effort has been devoted to checking and verifying some of the preliminary data reported previously. The technique employed in the past for measuring the x-ray transmission of the samples has been modified to provide more accurate values of the transmission. These transmission measurements are important for quantitative interpretation of the scattering data both because they are needed to determine the amount of background scattering that must be subtracted from a measured scattering curve and also because the value of the transmission is required for calculating the specific surface from the scattering data. Previous determinations of the specific surface have been checked and modified when corrected transmission values made recalculation necessary. Evaluation of the specific surface from the scattering data also requires a measurement of the absolute scattered intensity, or scattering cross section. In other words, the fraction of the incident radiation which is scattered must be known. For this scattering investigation of coals, the absolute intensity for the scattering system was determined by measurement of the scattering from a colloidal silica suspension. The details of this technique are described by I.S. Patel and P.W. Schmidt, J. Appl. Cryst. 4, 50 to 55. (1971).

  16. TINY HICCUPS TO TITANIC EXPLOSIONS: Tackling Transients in Anomalous X-ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    2007-09-01

    Recently discovered transient events in Anomalous X-ray Pulsars (AXPs) may be a Rosetta Stone for understanding the persistent emission from magnetars. They also may hold the key to quantifying the number of magnetars in the Galaxy. Here we request Chandra TOO time to observe any AXP following a rare transient event, including a major outburst or a long-duration flare. Specifically, the requested observations will determine the pulsed fraction and spectral evolution of a transient AXP event as the source relaxes back to quiescence, in order to quantitatively test the "twisted magnetosphere" model for magnetars, and establish the basic phenomenology of transient AXP events.

  17. Tiny Hiccups To Titanic Explosions: Tackling Transients in Anomalous X-ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    2006-09-01

    Recently discovered transient events in Anomalous X-ray Pulsars (AXPs) may be a Rosetta Stone for understanding the persistent emission from magnetars. They also may hold the key to quantifying the number of magnetars in the Galaxy. Here we request Chandra TOO time to observe any AXP following a rare transient event, including a major outburst or a long-duration flare. Specifically, the requested observations will determine the pulsed fraction and spectral evolution of a transient AXP event as the source relaxes back to quiescence, in order to quantitatively test the "twisted magnetosphere" model for magnetars, and establish the basic phenomenology of transient AXP events.

  18. TINY HICCUPS TO TITANIC EXPLOSIONS: Tackling Transients in Anomalous X-ray Pulsars

    NASA Astrophysics Data System (ADS)

    Kaspi, Victoria

    2005-09-01

    Recently discovered transient events in Anomalous X-ray Pulsars (AXPs) may be a Rosetta Stone for understanding the persistent emission from magnetars. They also may hold the key to quantifying the number of magnetars in the Galaxy. Here we request Chandra TOO time to observe any AXP following a rare transient event, including a major outburst or a long-duration flare. Specifically, the requested observations will determine the pulsed fraction and spectral evolution of a transient AXP event as the source relaxes back to quiescence, in order to quantitatively test the "twisted magnetosphere" model for magnetars, and establish the basic phenomenology of transient AXP events.

  19. Determination of the size and phase composition of silver nanoparticles in a gel film of bacterial cellulose by small-angle X-ray scattering, electron diffraction, and electron microscopy

    SciTech Connect

    Volkov, V. V.; Klechkovskaya, V. V. Shtykova, E. V.; Dembo, K. A.; Arkharova, N. A.; Ivakin, G. I.; Smyslov, R. Yu.

    2009-03-15

    The nanoscale structural features in a composite (gel film of Acetobacter Xylinum cellulose with adsorbed silver nanoparticles, stabilized by N-polyvinylpyrrolidone) have been investigated by small-angle X-ray scattering. The size distributions of inhomogeneities in the porous structure of the cellulose matrix and the size distributions of silver nanoparticles in the composite have been determined. It is shown that the sizes of synthesized nanoparticles correlate with the sizes of inhomogeneities in the gel film. Particles of larger size (with radii up to 100 nm) have also been found. Electron microscopy of thin cross sections of a dried composite layer showed that large particles are located on the cellulose layer surface. Electron diffraction revealed a crystal structure of silver nanoparticles in the composite.

  20. Synchrotron Small Angle X-Ray Scattering Quantitatively Detects Angstrom Level Changes in the Average Radius of Taxol-Stabilized Microtubules Decorated with the Microtubule-Associated-Protein Tau

    NASA Astrophysics Data System (ADS)

    Choi, Myung Chul; Raviv, Uri; Li, Youli; Miller, Herbert P.; Needleman, Daniel J.; Kim, Mahn Won; Wilson, Leslie; Feinstein, Stuart C.; Safinya, Cyrus R.

    2011-01-01

    With the emerging proteomics era the scientific community is beginning the daunting task of understanding the structures and functions of a large number of self-assembling proteins. Here, our study was concerned with the effect of the microtubule-associated-protein (MAP) tau on the assembled structure of taxol-stabilized microtubules. Significantly, the synchrotron small angle x-ray scattering (SAXS) technique is able to quantitatively detect angstrom level changes in the average diameter of the microtubules modeled as a simple hollow nanotube with a fixed wall thickness. We show that the electrostatic binding of MAP tau isoforms to taxol-stabilized MTs leads to a controlled increase in the average radius of microtubules with increasing coverage of tau on the MT surface. The increase in the average diameter results from an increase in the distribution of protofilament numbers in MTs upon binding of MAP tau.

  1. The structural diversity of DNA-neutral phospholipids-divalent metal cations aggregates: a small-angle synchrotron X-ray diffraction study.

    PubMed

    Uhríková, Daniela; Lengyel, Adrián; Hanulová, Mária; Funari, Sérgio S; Balgavý, Pavol

    2007-04-01

    We investigate the structure of aggregates formed due to DNA interaction with saturated neutral phosphatidylcholines [dipalmitoylphosphatidylcholine (DPPC) and dimyristoylphosphatidylcholine] in presence of Ca(2+) and Mg(2+) cations using simultaneous synchrotron small- and wide-angle X-ray diffractions. For DPPC:DNA = 3:1 mol/base and in the range of 1-50 mM Ca(2+), the diffractograms show structural heterogeneity of aggregates. We observe the coexistence of two lamellar phases in aggregates prepared at 1 mM Ca(2+): L(x) phase with the DNA strands (of unknown organization) intercalated in water layers between adjacent lipid bilayers and L(DPPC) phase of DPPC bilayers without any divalent cations and DNA strands. Aggregates prepared in the range 2-50 mM Ca(2+) show a condensed gel lamellar phase L (g) (c) with the lipid bilayer periodicity d approximately 8.0 nm, and the DNA-DNA interhelical distance d (DNA) approximately 5.1 nm. The increase of temperature induces the decrease in the intensity and the increase in the width of the DNA related peak. In the fluid state, the condensed lamellar phase L (alpha) (c) gradually converts into L(x) phase. The aggregates do not exhibit rippled P(beta) phase. The thermal behaviour of aggregates was investigated in the range 20-80 degrees C. Applying heating-cooling cycles, the aggregates converted into energetically more favourable structure: a condensed lamellar phase L(c) (or L(x)) is preserved or we observe lateral segregation of the DNA strands and metal cations (L(x) phase) in coexistence with L(PC) phase of pure phospholipids. PMID:16865363

  2. Determination of the polarization state of x rays with the help of anomalous transmission

    SciTech Connect

    Schulze, K. S. Uschmann, I.; Förster, E.; Marx, B.; Paulus, G. G.; Stöhlker, T.

    2014-04-14

    Besides intensity and direction, the polarization of an electromagnetic wave provides characteristic information on the crossed medium. Here, we present two methods for the determination of the polarization state of x rays by polarizers based on anomalous transmission (Borrmann effect). Using a polarizer-analyzer setup, we have measured a polarization purity of less than 1.5 × 10{sup −5}, three orders of magnitude better than obtained in earlier work. Using the analyzer crystal in multiple-beam case with slightly detuned azimuth, we show how the first three Stokes parameters can be determined with a single angular scan. Thus, polarization analyzers based on anomalous transmission make it possible to detect changes of the polarization in a range from degrees down to arcseconds.

  3. Optical pulsations from the anomalous X-ray pulsar 4U0142+61.

    PubMed

    Kern, B; Martin, C

    2002-05-30

    Anomalous X-ray pulsars (AXPs) differ from ordinary radio pulsars in that their X-ray luminosity is orders of magnitude greater than their rate of rotational energy loss, and so they require an additional energy source. One possibility is that AXPs are highly magnetized neuron stars or 'magnetars' having surface magnetic fields greater than 10(14) G. This would make them similar to the soft gamma-ray repeaters (SGRs), but alternative models that do not require extreme magnetic fields also exist. An optical counterpart to the AXP 4U0142+61 was recently discovered, consistent with emission from a magnetar, but also from a magnetized hot white dwarf, or an accreting isolated neutron star. Here we report the detection of optical pulsations from 4U0142+61. The pulsed fraction of optical light (27 per cent) is five to ten times greater than that of soft X-rays, from which we conclude that 4U0142+61 is a magnetar. Although this establishes a direct relationship between AXPs and the soft gamma-ray repeaters, the evolutionary connection between AXPs, SGRs and radio pulsars remains controversial. PMID:12037561

  4. Optical pulsations from the anomalous X-ray pulsar 4U0142+61.

    PubMed

    Kern, B; Martin, C

    2002-05-30

    Anomalous X-ray pulsars (AXPs) differ from ordinary radio pulsars in that their X-ray luminosity is orders of magnitude greater than their rate of rotational energy loss, and so they require an additional energy source. One possibility is that AXPs are highly magnetized neuron stars or 'magnetars' having surface magnetic fields greater than 10(14) G. This would make them similar to the soft gamma-ray repeaters (SGRs), but alternative models that do not require extreme magnetic fields also exist. An optical counterpart to the AXP 4U0142+61 was recently discovered, consistent with emission from a magnetar, but also from a magnetized hot white dwarf, or an accreting isolated neutron star. Here we report the detection of optical pulsations from 4U0142+61. The pulsed fraction of optical light (27 per cent) is five to ten times greater than that of soft X-rays, from which we conclude that 4U0142+61 is a magnetar. Although this establishes a direct relationship between AXPs and the soft gamma-ray repeaters, the evolutionary connection between AXPs, SGRs and radio pulsars remains controversial.

  5. Long-term evolution of anomalous X-ray pulsars and soft gamma repeaters

    NASA Astrophysics Data System (ADS)

    Benli, O.; Ertan, Ü.

    2016-04-01

    We have investigated the long-term evolution of individual anomalous X-ray pulsars (AXPs) and soft gamma repeaters (SGRs) with relatively well constrained X-ray luminosity and rotational properties. In the frame of the fallback disc model, we have obtained the ranges of disc mass and dipole field strength that can produce the observed source properties. We have compared our results with those obtained earlier for dim isolated neutron stars (XDINs). Our results show that (1) the X-ray luminosity, period and period derivative of the individual AXP/SGR sources can be produced self-consistently in the fallback disc model with very similar basic disc parameters to those used earlier in the same model to explain the long-term evolution of XDINs, (2) except two sources, AXP/SGRs are evolving in the accretion phase; these two exceptional sources, like XDINs, completed their accretion phase in the past and are now evolving in the final propeller phase and still slowing down with the disc torques, (3) the dipole field strengths (at the poles) of XDINs are in the 1011-1012 G range, while AXP/SGRs have relatively strong dipole fields between 1 and 6 × 1012 G, and (4) the source properties can be obtained with large ranges of disc masses which do not allow a clear test of correlation between disc masses and the magnetic dipole fields for the whole AXP/SGRs and XDIN population.

  6. Observations of transient and anomalous x-ray pulsars with the burst and transient source experiment and the Rossi x-ray timing explorer

    NASA Astrophysics Data System (ADS)

    Wilson-Hodge, Colleen Anne

    1999-11-01

    The Burst and Transient Source Experiment (BATSE) on the Compton Gamma-Ray Observatory and the Rossi X-ray Timing Explorer (RXTE) allow unprecedented studies of X- ray pulsars. The first part of this dissertation describes the capabilities for X-ray observations with BATSE and RXTE and X-ray timing and source detection techniques, which are applied to five transient X-ray pulsars in the second part of this dissertation. Observations of the 12.3-s pulsar GS 0834- 430 discovered that it is in a 105.8 +/- 0.4-day orbit with a small, but non-zero, eccentricity. GS 0834- 430 underwent nine normal (LX ~ 3 × 1037 erg s-1) periodic X-ray outbursts, spaced at the orbital period; however, the last two outbursts were unevenly spaced. No other known systems exhibit these shifted outbursts. The 198-s pulsar GRO J2058+42, which was discovered with BATSE during a giant ( LX ~ 3 × 1038 erg s-1 ) outburst in 1995, underwent a series of nine outbursts alternating in 20-50 keV pulsed intensity every ~55 days, suggesting a ~110-day outburst cycle, however, the 2-10 keV intensities did not show this alternating behavior. If the outburst cycle corresponds to the orbital period, two outbursts are occurring each orbit, near periastron and apastron. Cep X-4, a 66.3-s Be/X-ray pulsar, was detected in two normal outbursts in 1993 and 1997. If all outbursts of Cep X-4 are assumed to occur at the same orbital phase, the orbital period is 23 days <~ Porb <~ 147.3 days. A 1118-616, a 405-s Be/X- ray pulsar, underwent a 65-day giant outburst comprising three peaks, spaced by ~22 days. The 293-s Be/X-ray pulsar, 4U 1145-619, underwent 12 outbursts occurring every 186.68 +/- 0.05 days, which varied widely in intensity and duration, with no clear distinction between giant and normal outbursts. The third part of this dissertation presents results on an 8.7-s anomalous X-ray pulsar (AXP), 4U 0142+61. An orbital period search yielded an upper limit on the semi-major axis a x sin i <~ 0.26 lt-s for

  7. Probing the surface microstructure of layer-by-layer self-assembly chitosan/poly(l-glutamic acid) multilayers: A grazing-incidence small-angle X-ray scattering study.

    PubMed

    Zhao, Nie; Yang, Chunming; Wang, Yuzhu; Zhao, Binyu; Bian, Fenggang; Li, Xiuhong; Wang, Jie

    2016-01-01

    This study characterized the surface structure of layer-by-layer self-assembly chitosan/poly(L-glutamic acid) multilayers through grazing-incidence small-angle X-ray scattering (GISAXS), X-ray reflectivity (XRR), and atomic force microscopy (AFM). A weakly long-period ordered structure along the in-plane direction was firstly observed in the polyelectrolyte multilayer by the GISAXS technique. This structure can be attributed to the specific domains on the film surface. In the domain, nanodroplets that were formed by polyelectrolyte molecules were orderly arranged along the free surface of the films. This ordered structure gradually disappeared with the increasing bilayer number because of the complex merging behavior of nanodroplets into large islands. Furthermore, resonant diffuse scattering became evident in the GISAXS patterns as the number of bilayers in the polyelectrolyte multilayer was increased. Notably, the lateral cutoff length of resonant diffuse scattering for these polyelectrolyte films was comparable with the long-period value of the ordered nanodroplets in the polyelectrolyte multilayer. Therefore, the nanodroplets could be considered as a basic transmission unit for structure propagation from the inner interface to the film surface. It suggests that the surface structure with length scale larger than the size of nanodroplets was partially complicated from the interface structure near the substrate, but surface structure smaller than the cutoff length was mainly depended on the conformation of nanodroplets. PMID:26478320

  8. The roles of RIIbeta linker and N-terminal cyclic nucleotide-binding domain in determining the unique structures of Type IIbeta Protein Kinase A. A small angle X-ray and neutron scattering study

    DOE PAGESBeta

    Blumenthal, Donald K.; Copps, Jeffrey; Smith-Nguyen, Eric V.; Zhang, Ping; Heller, William T.; Taylor, Susan S.

    2014-08-11

    Protein kinase A (PKA) is ubiquitously expressed and is responsible for regulating many important cellular functions in response to changes in intracellular cAMP concentrations. Moreover, the PKA holoenzyme is a tetramer (R2:C2), with a regulatory subunit homodimer (R2) that binds and inhibits two catalytic (C) subunits; binding of cAMP to the regulatory subunit homodimer causes activation of the catalytic subunits. Four different R subunit isoforms exist in mammalian cells, and these confer different structural features, subcellular localization, and biochemical properties upon the PKA holoenzymes they form. The holoenzyme containing RIIβ is structurally unique in that the type IIβ holoenzyme ismore » much more compact than the free RIIβ homodimer. We have used small angle x-ray scattering and small angle neutron scattering to study the solution structure and subunit organization of a holoenzyme containing an RIIβ C-terminal deletion mutant (RIIβ(1–280)), which is missing the C-terminal cAMP-binding domain to better understand the structural organization of the type IIβ holoenzyme and the RIIβ domains that contribute to stabilizing the holoenzyme conformation. These results demonstrate that compaction of the type IIβ holoenzyme does not require the C-terminal cAMP-binding domain but rather involves large structural rearrangements within the linker and N-terminal cyclic nucleotide-binding domain of the RIIβ homodimer. The structural rearrangements are significantly greater than seen previously with RIIα and are likely to be important in mediating short range and long range interdomain and intersubunit interactions that uniquely regulate the activity of the type IIβ isoform of PKA.« less

  9. The roles of RIIbeta linker and N-terminal cyclic nucleotide-binding domain in determining the unique structures of Type IIbeta Protein Kinase A. A small angle X-ray and neutron scattering study

    SciTech Connect

    Blumenthal, Donald K.; Copps, Jeffrey; Smith-Nguyen, Eric V.; Zhang, Ping; Heller, William T.; Taylor, Susan S.

    2014-08-11

    Protein kinase A (PKA) is ubiquitously expressed and is responsible for regulating many important cellular functions in response to changes in intracellular cAMP concentrations. Moreover, the PKA holoenzyme is a tetramer (R2:C2), with a regulatory subunit homodimer (R2) that binds and inhibits two catalytic (C) subunits; binding of cAMP to the regulatory subunit homodimer causes activation of the catalytic subunits. Four different R subunit isoforms exist in mammalian cells, and these confer different structural features, subcellular localization, and biochemical properties upon the PKA holoenzymes they form. The holoenzyme containing RIIβ is structurally unique in that the type IIβ holoenzyme is much more compact than the free RIIβ homodimer. We have used small angle x-ray scattering and small angle neutron scattering to study the solution structure and subunit organization of a holoenzyme containing an RIIβ C-terminal deletion mutant (RIIβ(1–280)), which is missing the C-terminal cAMP-binding domain to better understand the structural organization of the type IIβ holoenzyme and the RIIβ domains that contribute to stabilizing the holoenzyme conformation. These results demonstrate that compaction of the type IIβ holoenzyme does not require the C-terminal cAMP-binding domain but rather involves large structural rearrangements within the linker and N-terminal cyclic nucleotide-binding domain of the RIIβ homodimer. The structural rearrangements are significantly greater than seen previously with RIIα and are likely to be important in mediating short range and long range interdomain and intersubunit interactions that uniquely regulate the activity of the type IIβ isoform of PKA.

  10. On the Extended Emission of the Anomalous X-ray Pulsar IE 1547.0-5408

    NASA Technical Reports Server (NTRS)

    Olausen, S. A.; Kaspi, V. M.; Ng, C. -Y.; Zhu, W. W.; Gavriil, F. P.; Woods, P. M.

    2012-01-01

    We present an analysis of the extended emission around the anomalous X-ray pulsar IE 1547.0-5408 using four XMM-Newton observations taken with the source in varying states of outburst as well as in quiescence. We find that the extended emission flux is highly variable and strongly correlated with the flux of the magnetar. Based on this result, as well as on spectral and energetic considerations, we conclude that the extended emission is dominated by a dust-scattering halo and not a pulsar wind nebula (P-VVN), as has been previously argued. We obtain an upper limit on the 2-10 keV flux of a possible PWN of 4.7 x 10(exp -14) erg/s/sq cm, three times less than the previously claimed value, implying an efficiency for conversion of spin-down energy into nebular luminosity of <9 x 10(exp -4) .

  11. Real-time small-angle x-ray scattering study of the early stage of phase separation in the SiO sub 2 -BaO-K sub 2 O system

    SciTech Connect

    Stephenson, G.B. ); Warburton, W.K. ); Haller, W. ); Bienenstock, A. )

    1991-06-01

    Time-resolved small-angle x-ray scattering was used to study the early stage of phase separation in a silicate system. Scattering patterns were acquired in real time as a sample was quenched {ital in} {ital situ} from a temperature {ital T}{sub 1} in the single-phase region directly to a temperature {ital T}{sub 2} in the two-phase region and held isothermally. This was made possible by using a high-intensity synchrotron x-ray source, a fast position-sensitive detector, a sample heater capable of rapid quenches, and a sample composition chosen to give good scattering contrast and relatively slow kinetics. The composition studied, 90 mol% SiO{sub 2}, 5 mol% BaO, and 5 mol% K{sub 2}O, undergoes subliquidus phase separation at temperatures below 1021 K to form alkali-oxide-rich and alkali-oxide-poor amorphous phases. The temperatures used were {ital T}{sub 1}=1074 K and {ital T}{sub 2}=1014, 995, 970, and 950 K. While the resultant data agree qualitatively with the linearized thermodynamics of the Cahn-Hilliard-Cook (CHC) theory of spinodal decomposition (i.e., the structure factor changes exponentially with time at each wave number), they do not agree with the simple diffusive kinetics used in the CHC theory. The data are in very good agreement with a modified theory incorporating diffusion-induced-flow (DIF) kinetics, in which one considers both the generation of stress arising from unequal mobilities of the diffusing species and the relaxation of this stress through deformation. Values of the material parameters as a function of temperature obtained from fits of the DIF theory to the data are in reasonable agreement with independent measurements and estimates based on a regular-solution model.

  12. Pulsed Laser Ablation-Induced Green Synthesis of TiO2 Nanoparticles and Application of Novel Small Angle X-Ray Scattering Technique for Nanoparticle Size and Size Distribution Analysis

    NASA Astrophysics Data System (ADS)

    Singh, Amandeep; Vihinen, Jorma; Frankberg, Erkka; Hyvärinen, Leo; Honkanen, Mari; Levänen, Erkki

    2016-10-01

    This paper aims to introduce small angle X-ray scattering (SAXS) as a promising technique for measuring size and size distribution of TiO2 nanoparticles. In this manuscript, pulsed laser ablation in liquids (PLAL) has been demonstrated as a quick and simple technique for synthesizing TiO2 nanoparticles directly into deionized water as a suspension from titanium targets. Spherical TiO2 nanoparticles with diameters in the range 4-35 nm were observed with transmission electron microscopy (TEM). X-ray diffraction (XRD) showed highly crystalline nanoparticles that comprised of two main photoactive phases of TiO2: anatase and rutile. However, presence of minor amounts of brookite was also reported. The traditional methods for nanoparticle size and size distribution analysis such as electron microscopy-based methods are time-consuming. In this study, we have proposed and validated SAXS as a promising method for characterization of laser-ablated TiO2 nanoparticles for their size and size distribution by comparing SAXS- and TEM-measured nanoparticle size and size distribution. SAXS- and TEM-measured size distributions closely followed each other for each sample, and size distributions in both showed maxima at the same nanoparticle size. The SAXS-measured nanoparticle diameters were slightly larger than the respective diameters measured by TEM. This was because SAXS measures an agglomerate consisting of several particles as one big particle which slightly increased the mean diameter. TEM- and SAXS-measured mean diameters when plotted together showed similar trend in the variation in the size as the laser power was changed which along with extremely similar size distributions for TEM and SAXS validated the application of SAXS for size distribution measurement of the synthesized TiO2 nanoparticles.

  13. Time-resolved small-angle X-ray scattering investigation of the folding dynamics of heme oxygenase: implication of the scaling relationship for the submillisecond intermediates of protein folding.

    PubMed

    Uzawa, Takanori; Kimura, Tetsunari; Ishimori, Koichiro; Morishima, Isao; Matsui, Toshitaka; Ikeda-Saito, Masao; Takahashi, Satoshi; Akiyama, Shuji; Fujisawa, Tetsuro

    2006-03-31

    Polypeptide collapse is generally observed as the initial folding dynamics of proteins with more than 100 residues, and is suggested to be caused by the coil-globule transition explained by Flory's theory of polymers. To support the suggestion by establishing a scaling behavior between radius of gyration (Rg) and chain length for the initial folding intermediates, the folding dynamics of heme oxygenase (HO) was characterized by time-resolved, small-angle X-ray scattering. HO is a highly helical protein without disulfide bridges, and is the largest protein (263 residues) characterized by the method. The folding process of HO was found to contain a transient oligomerization; however, the conformation within 10 ms was demonstrated to be monomeric and to possess Rg of 26.1(+/-1.1) A. Together with the corresponding data for proteins with different chain lengths, the seven Rg values demonstrated the scaling relationship to chain length with a scaling exponent of 0.35+/-0.11, which is close to the theoretical value of 1/3 predicted for globules in solutions where monomer-monomer interactions are favored over monomer-solvent interactions (poor solvent). The finding indicated that the initial folding dynamics of proteins bears the signature of the coil-globule transition, and offers a clue to explain the folding mechanisms of proteins with different chain lengths. PMID:16460755

  14. Apo- and Antagonist-Binding Structures of Vitamin D Receptor Ligand-Binding Domain Revealed by Hybrid Approach Combining Small-Angle X-ray Scattering and Molecular Dynamics.

    PubMed

    Anami, Yasuaki; Shimizu, Nobutaka; Ekimoto, Toru; Egawa, Daichi; Itoh, Toshimasa; Ikeguchi, Mitsunori; Yamamoto, Keiko

    2016-09-01

    Vitamin D receptor (VDR) controls the expression of numerous genes through the conformational change caused by binding 1α,25-dihydroxyvitamin D3. Helix 12 in the ligand-binding domain (LBD) is key to regulating VDR activation. The structures of apo VDR-LBD and the VDR-LBD/antagonist complex are unclear. Here, we reveal their unprecedented structures in solution using a hybrid method combining small-angle X-ray scattering and molecular dynamics simulations. In apo rat VDR-LBD, helix 12 is partially unraveled, and it is positioned around the canonical active position and fluctuates. Helix 11 greatly bends toward the outside at Q396, creating a kink. In the rat VDR-LBD/antagonist complex, helix 12 does not generate the activation function 2 surface, and loop 11-12 is remarkably flexible compared to that in the apo rat VDR-LBD. On the basis of these structural insights, we propose a "folding-door model" to describe the mechanism of agonism/antagonism of VDR-LBD. PMID:27535484

  15. Apo- and Antagonist-Binding Structures of Vitamin D Receptor Ligand-Binding Domain Revealed by Hybrid Approach Combining Small-Angle X-ray Scattering and Molecular Dynamics.

    PubMed

    Anami, Yasuaki; Shimizu, Nobutaka; Ekimoto, Toru; Egawa, Daichi; Itoh, Toshimasa; Ikeguchi, Mitsunori; Yamamoto, Keiko

    2016-09-01

    Vitamin D receptor (VDR) controls the expression of numerous genes through the conformational change caused by binding 1α,25-dihydroxyvitamin D3. Helix 12 in the ligand-binding domain (LBD) is key to regulating VDR activation. The structures of apo VDR-LBD and the VDR-LBD/antagonist complex are unclear. Here, we reveal their unprecedented structures in solution using a hybrid method combining small-angle X-ray scattering and molecular dynamics simulations. In apo rat VDR-LBD, helix 12 is partially unraveled, and it is positioned around the canonical active position and fluctuates. Helix 11 greatly bends toward the outside at Q396, creating a kink. In the rat VDR-LBD/antagonist complex, helix 12 does not generate the activation function 2 surface, and loop 11-12 is remarkably flexible compared to that in the apo rat VDR-LBD. On the basis of these structural insights, we propose a "folding-door model" to describe the mechanism of agonism/antagonism of VDR-LBD.

  16. Accurate Measurements of Dielectric and Optical Functions of Liquid Water and Liquid Benzene in the VUV Region (1-100 eV) Using Small-Angle Inelastic X-ray Scattering.

    PubMed

    Hayashi, Hisashi; Hiraoka, Nozomu

    2015-04-30

    Using a third-generation synchrotron source (the BL12XU beamline at SPring-8), inelastic X-ray scattering (IXS) spectra of liquid water and liquid benzene were measured at energy losses of 1-100 eV with 0.24 eV resolution for small momentum transfers (q) of 0.23 and 0.32 au with ±0.06 au uncertainty for q. For both liquids, the IXS profiles at these values of q converged well after we corrected for multiple scattering, and these results confirmed the dipole approximation for q ≤ ∼0.3 au. Several dielectric and optical functions [including the optical oscillator strength distribution (OOS), the optical energy-loss function (OLF), the complex dielectric function, the complex index of refraction, and the reflectance] in the vacuum ultraviolet region were derived and tabulated from these small-angle (small q) IXS spectra. These new data were compared with previously obtained results, and this comparison demonstrated the strong reproducibility and accuracy of IXS spectroscopy. For both water and benzene, there was a notable similarity between the OOSs of the liquids and amorphous solids, and there was no evidence of plasmon excitation in the OLF. The static structure factor [S(q)] for q ≤ ∼0.3 au was also deduced and suggests that molecular models that include electron correlation effects can serve as a good approximation for the liquid S(q) values over the full range of q.

  17. Structural dynamics and ssDNA binding activity of the three N-terminal domains of the large subunit of Replication Protein A from small angle X-ray scattering

    SciTech Connect

    Pretto, Dalyir I.; Tsutakawa, Susan; Brosey, Chris A.; Castillo, Amalchi; Chagot, Marie-Eve; Smith, Jarrod A.; Tainer, John A.; Chazin, Walter J.

    2010-03-11

    Replication Protein A (RPA) is the primary eukaryotic ssDNA binding protein utilized in diverse DNA transactions in the cell. RPA is a heterotrimeric protein with seven globular domains connected by flexible linkers, which enable substantial inter-domain motion that is essential to its function. Small angle X-ray scattering (SAXS) experiments on two multi-domain constructs from the N-terminus of the large subunit (RPA70) were used to examine the structural dynamics of these domains and their response to the binding of ssDNA. The SAXS data combined with molecular dynamics simulations reveal substantial interdomain flexibility for both RPA70AB (the tandem high affinity ssDNA binding domains A and B connected by a 10-residue linker) and RPA70NAB (RPA70AB extended by a 70-residue linker to the RPA70N protein interaction domain). Binding of ssDNA to RPA70NAB reduces the interdomain flexibility between the A and B domains, but has no effect on RPA70N. These studies provide the first direct measurements of changes in orientation of these three RPA domains upon binding ssDNA. The results support a model in which RPA70N remains structurally independent of RPA70AB in the DNA bound state and therefore freely available to serve as a protein recruitment module.

  18. Small-angle X-ray analysis of the effect of grain size on the thermal damage of octahydro-1, 3, 5, 7-tetranitro-1, 3, 5, 7 tetrazocine-based plastic-bounded expolsives

    NASA Astrophysics Data System (ADS)

    Yan, Guan-Yun; Tian, Qiang; Liu, Jia-Hui; Chen, Bo; Sun, Guang-Ai; Huang, Ming; Li, Xiu-Hong

    2014-07-01

    The microstructure evolution of plastic-bonded explosives (PBXs) after thermal stimulus plays a key role in PBX performance. In this paper, the nanoscale pores of thermal-treated octahydro-1,3,5,7-tetranitro-1,3,5,7 tetrazocine (HMX)-based PBXs with different HMX particle sizes [approximately 40 (FHP) and 100 μm (LHP)] were measured using small-angle X-ray scattering (SAXS). No obvious pore variations were found in the LHP samples heated at 160 °C for 6 h, whereas the amount of pores of FHP decreased when subjected to 160 °C for 6 h. At 180 °C, the average pore radii of FHP and LHP decreased from approximately 45 nm to 25 nm, and the total pore volume increased distinctively because of phase transformation. The LHP sample reached a high level of pore content after being held at 180 °C for 1 h, whereas FHP required 3 h. Both FHP and LHP had relatively high pore volumes when subjected to 200 °C for 1 and 3 h.

  19. AN ACCRETION MODEL FOR THE ANOMALOUS X-RAY PULSAR 4U 0142+61

    SciTech Connect

    Truemper, J. E.; Dennerl, K.; Kylafis, N. D.; Zezas, A.; Ertan, Ue.

    2013-02-10

    We propose that the quiescent emission of anomalous X-ray pulsars/soft gamma-ray repeaters (AXPs/SGRs) is powered by accretion from a fallback disk, requiring magnetic dipole fields in the range 10{sup 12}-10{sup 13} G, and that the luminous hard tails of their X-ray spectra are produced by bulk-motion Comptonization in the radiative shock near the bottom of the accretion column. This radiation escapes as a fan beam, which is partly absorbed by the polar cap photosphere, heating it up to relatively high temperatures. The scattered component and the thermal emission from the polar cap form a polar beam. We test our model on the well-studied AXP 4U 0142+61, whose energy-dependent pulse profiles show double peaks, which we ascribe to the fan and polar beams. The temperature of the photosphere (kT {approx} 0.4 keV) is explained by the heating effect. The scattered part forms a hard component in the polar beam. We suggest that the observed high temperatures of the polar caps of AXPs/SGRs, compared with other young neutron stars, are due to the heating by the fan beam. Using beaming functions for the fan beam and the polar beam and taking gravitational bending into account, we fit the energy-dependent pulse profiles and obtain the inclination angle and the angle between the spin axis and the magnetic dipole axis, as well as the height of the radiative shock above the stellar surface. We do not explain the high-luminosity bursts, which may be produced by the classical magnetar mechanism operating in super-strong multipole fields.

  20. The Crystal Structure and Small-Angle X-Ray Analysis of CsdL/TcdA Reveal a New tRNA Binding Motif in the MoeB/E1 Superfamily

    PubMed Central

    López-Estepa, Miguel; Ardá, Ana; Savko, Martin; Round, Adam; Shepard, William E.; Bruix, Marta; Coll, Miquel; Fernández, Francisco J.; Jiménez-Barbero, Jesús; Vega, M. Cristina

    2015-01-01

    Cyclic N6-threonylcarbamoyladenosine (‘cyclic t6A’, ct6A) is a non-thiolated hypermodification found in transfer RNAs (tRNAs) in bacteria, protists, fungi and plants. In bacteria and yeast cells ct6A has been shown to enhance translation fidelity and efficiency of ANN codons by improving the faithful discrimination of aminoacylated tRNAs by the ribosome. To further the understanding of ct6A biology we have determined the high-resolution crystal structures of CsdL/TcdA in complex with AMP and ATP, an E1-like activating enzyme from Escherichia coli, which catalyzes the ATP-dependent dehydration of t6A to form ct6A. CsdL/TcdA is a dimer whose structural integrity and dimer interface depend critically on strongly bound K+ and Na+ cations. By using biochemical assays and small-angle X-ray scattering we show that CsdL/TcdA can associate with tRNA with a 1:1 stoichiometry and with the proper position and orientation for the cyclization of t6A. Furthermore, we show by nuclear magnetic resonance that CsdL/TcdA engages in transient interactions with CsdA and CsdE, which, in the latter case, involve catalytically important residues. These short-lived interactions may underpin the precise channeling of sulfur atoms from cysteine to CsdL/TcdA as previously characterized. In summary, the combination of structural, biophysical and biochemical methods applied to CsdL/TcdA has afforded a more thorough understanding of how the structure of this E1-like enzyme has been fine tuned to accomplish ct6A synthesis on tRNAs while providing support for the notion that CsdA and CsdE are able to functionally interact with CsdL/TcdA. PMID:25897750

  1. Specificity of the double-stranded RNA-binding domain from the RNA-activated protein kinase PKR for double-stranded RNA: insights from thermodynamics and small-angle X-ray scattering.

    PubMed

    Patel, Sunita; Blose, Joshua M; Sokoloski, Joshua E; Pollack, Lois; Bevilacqua, Philip C

    2012-11-20

    The interferon-inducible, double-stranded (ds) RNA-activated protein kinase (PKR) contains a dsRNA-binding domain (dsRBD) and plays key roles in viral pathogenesis and innate immunity. Activation of PKR is typically mediated by long dsRNA, and regulation of PKR is disfavored by most RNA imperfections, including bulges and internal loops. Herein, we combine isothermal titration calorimetry (ITC), electrophoretic mobility shift assays, and small-angle X-ray scattering (SAXS) to dissect the thermodynamic basis for the specificity of the dsRBD termed "p20" for various RNAs and to detect any RNA conformational changes induced upon protein binding. We monitor binding of p20 to chimeric duplexes containing terminal RNA-DNA hybrid segments and a central dsRNA segment, which was either unbulged ("perfect") or bulged. The ITC data reveal strong binding of p20 to the perfect duplex (K(d) ~ 30 nM) and weaker binding to the bulged duplex (K(d) ~ 2-5 μM). SAXS reconstructions and p(r) distance distribution functions further uncover that p20 induces no significant conformational change in perfect dsRNA but largely straightens bulged dsRNA. Together, these observations support the dsRBD's ability to tightly bind to only A-form RNA and suggest that in a noninfected cell, PKR may be buffered via weak interactions with various bulged and looped RNAs, which it may straighten. This work suggests that PKR-regulating RNAs with complex secondary and tertiary structures likely mimic dsRNA and/or engage portions of PKR outside of the dsRBD.

  2. Structure of the bifunctional aminoglycoside-resistance enzyme AAC(6′)-Ie-APH(2′′)-Ia revealed by crystallographic and small-angle X-ray scattering analysis

    PubMed Central

    Smith, Clyde A.; Toth, Marta; Weiss, Thomas M.; Frase, Hilary; Vakulenko, Sergei B.

    2014-01-01

    Broad-spectrum resistance to aminoglycoside antibiotics in clinically important Gram-positive staphylococcal and entero­coccal pathogens is primarily conferred by the bifunctional enzyme AAC(6′)-Ie-APH(2′′)-Ia. This enzyme possesses an N-terminal coenzyme A-dependent acetyltransferase domain [AAC(6′)-Ie] and a C-terminal GTP-dependent phosphotransferase domain [APH(2′′)-Ia], and together they produce resistance to almost all known aminoglycosides in clinical use. Despite considerable effort over the last two or more decades, structural details of AAC(6′)-Ie-APH(2′′)-Ia have remained elusive. In a recent breakthrough, the structure of the isolated C-terminal APH(2′′)-Ia enzyme was determined as the binary Mg2GDP complex. Here, the high-resolution structure of the N-terminal AAC(6′)-Ie enzyme is reported as a ternary kanamycin/coenzyme A abortive complex. The structure of the full-length bifunctional enzyme has subsequently been elucidated based upon small-angle X-ray scattering data using the two crystallographic models. The AAC(6′)-Ie enzyme is joined to APH(2′′)-Ia by a short, predominantly rigid linker at the N-terminal end of a long α-helix. This α-helix is in turn intrinsically associated with the N-terminus of APH(2′′)-Ia. This structural arrangement supports earlier observations that the presence of the intact α-helix is essential to the activity of both functionalities of the full-length AAC(6′)-Ie-APH(2′′)-Ia enzyme. PMID:25286858

  3. Small-angle x-ray scattering studies of calmodulin mutants with deletions in the linker region of the central helix indicate that the linker region retains a predominantly. alpha. -helical conformation

    SciTech Connect

    Kataoka, Mikio; Engelman, D.M. ); Head, J.F. ); Persechini, A.; Kretsinger, R.H. )

    1991-02-05

    Two mutant forms of calmodulin were examined by small-angle X-ray scattering in solution and compared with the wild-type protein. Each mutant has deletions in the linker region of the central helix: one lacks residues Glu-83 and Glu-84 (Des2) and the other lacks residues Ser-81 through Glu-84 (Des4). The deletions change both the radii of gyration and the maximum dimensions of the molecules. In the presence of Ca{sup 2+}, the observed radii of gyration are 22.4 {angstrom} for wild-type bacterially expressed calmodulin, 19.5 {angstrom} for Des2 calmodulin, and 20.3 {angstrom} for Des4 calmodulin. A reduction in the radius of gyration by 1-2 {angstrom} on removal of calcium, previously observed in the native protein, was also found in the wild type and the Des4 mutant; however, no significant size change was observed in the Des2 mutant. The large calcium-dependent conformational change in calmodulin induced by the binding of melittin was observed in all the bacterially expressed proteins. Each protein appears to undergo a transition from a dumbbell shape to a more globular conformation on binding melittin in the presence of calcium, although quantitatively the changes in the wild-type and Des4 proteins greatly exceed those in Des2. Modeling shows that the structural properties of the deletion mutants are well described by modifications of an {alpha} helix in the central linker region of the molecule. Thus, the structure of the linker region is stable enough to maintain the average orientation and separation of the lobes yet flexible enough to permit the lobes to approach each other upon binding a peptide.

  4. Buffer-induced swelling and vesicle budding in binary lipid mixtures of dioleoylphosphatidylcholine:dioleoylphosphatidylethanolamine and dioleoylphosphatidylcholine:lysophosphatidylcholine using small-angle X-ray scattering and ³¹P static NMR.

    PubMed

    Barriga, Hanna M G; Bazin, Richard; Templer, Richard H; Law, Robert V; Ces, Oscar

    2015-03-17

    A large variety of data exists on lipid phase behavior; however, it is mostly in nonbuffered systems over nonbiological temperature ranges. We present biophysical data on lipid mixtures of dioleoylphosphatidylcholine (DOPC), dioleoylphosphatidylethanolamine (DOPE), and lysophosphatidylcholine (LysoPC) examining their behaviors in excess water and buffer systems over the temperature range 4-34 °C. These mixtures are commonly used to investigate the effects of spontaneous curvature on integral membrane proteins. Using small-angle X-ray scattering (SAXS) and (31)P NMR, we observed lamellar and vesicle phases, with the buffer causing an increase in the layer spacing. Increasing amounts of DOPE in a DOPC bilayer decreased the layer spacing of the mesophase, while the opposite trend was observed for increasing amounts of LysoPC. (31)P static NMR was used to analyze the DOPC:LysoPC samples to investigate the vesicle sizes present, with evidence of vesicle budding observed at LysoPC concentrations above 30 mol %. NMR line shapes were fitted using an adapted program accounting for the distortion of the lipids within the magnetic field. The distortion of the vesicle, because of magnetic susceptibility, varied with LysoPC content, and a discontinuity was found in both the water and buffer samples. Generally, the distortion increased with LysoPC content; however, at a ratio of DOPC:LysoPC 60:40, the sample showed a level of distortion of the vesicle similar to that of pure DOPC. This implies an increased flexibility in the membrane at this point. Commonly, the assumption is that for increasing LysoPC concentration there is a reduction in membrane tension, implying that estimations of membrane tension based on spontaneous curvature assumptions may not be accurate.

  5. The crystal structure and small-angle X-ray analysis of CsdL/TcdA reveal a new tRNA binding motif in the MoeB/E1 superfamily.

    PubMed

    López-Estepa, Miguel; Ardá, Ana; Savko, Martin; Round, Adam; Shepard, William E; Bruix, Marta; Coll, Miquel; Fernández, Francisco J; Jiménez-Barbero, Jesús; Vega, M Cristina

    2015-01-01

    Cyclic N6-threonylcarbamoyladenosine ('cyclic t6A', ct(6)A) is a non-thiolated hypermodification found in transfer RNAs (tRNAs) in bacteria, protists, fungi and plants. In bacteria and yeast cells ct(6)A has been shown to enhance translation fidelity and efficiency of ANN codons by improving the faithful discrimination of aminoacylated tRNAs by the ribosome. To further the understanding of ct(6)A biology we have determined the high-resolution crystal structures of CsdL/TcdA in complex with AMP and ATP, an E1-like activating enzyme from Escherichia coli, which catalyzes the ATP-dependent dehydration of t6A to form ct(6)A. CsdL/TcdA is a dimer whose structural integrity and dimer interface depend critically on strongly bound K+ and Na+ cations. By using biochemical assays and small-angle X-ray scattering we show that CsdL/TcdA can associate with tRNA with a 1:1 stoichiometry and with the proper position and orientation for the cyclization of t6A. Furthermore, we show by nuclear magnetic resonance that CsdL/TcdA engages in transient interactions with CsdA and CsdE, which, in the latter case, involve catalytically important residues. These short-lived interactions may underpin the precise channeling of sulfur atoms from cysteine to CsdL/TcdA as previously characterized. In summary, the combination of structural, biophysical and biochemical methods applied to CsdL/TcdA has afforded a more thorough understanding of how the structure of this E1-like enzyme has been fine tuned to accomplish ct(6)A synthesis on tRNAs while providing support for the notion that CsdA and CsdE are able to functionally interact with CsdL/TcdA.

  6. Structural effects of insulin-loading into HII mesophases monitored by electron paramagnetic resonance (EPR), small angle X-ray spectroscopy (SAXS), and attenuated total reflection Fourier transform spectroscopy (ATR-FTIR).

    PubMed

    Mishraki, Tehila; Ottaviani, Maria Francesca; Shames, Alexander I; Aserin, Abraham; Garti, Nissim

    2011-06-30

    Insulin entrapment within a monoolein-based reverse hexagonal (H(II)) mesophase was investigated under temperature-dependent conditions at acidic (pH 3) and basic (pH 8) conditions. Studying the structure of the host H(II) system and the interactions of insulin under temperature-dependent conditions has great impact on the enhancement of its thermal stabilization and controlled release for the purposes of transdermal delivery. Small angle X-ray spectroscopy (SAXS) measurements show that pH variation and/or insulin entrapment preserve the hexagonal structure and do not influence the lattice parameter. Attenuated total reflection Fourier transform spectroscopy (ATR-FTIR) spectra indicate that, although insulin interacts with hydroxyl groups of GMO in the interface region, it is not affected by pH variations. Hence different microenvironments within the H(II) mesophase were monitored by a computer-aided electron paramagnetic resonance (EPR) analysis using 5-doxylstearic acid (5-DSA) as a pH-dependent probe. The microviscosity, micropolarity, order of systems, and distribution of the probes in different microenvironments were influenced by three factors: temperature, pH, and insulin solubilization. When the temperature is increased, microviscosity and order parameters decreased at both pH 3 and 8, presenting different decrease trends. It was found that, at pH 3, the protein perturbs the lipid structure while "pushing aside" the un-ionized 5-DSA probe to fit into the narrow water cylinders. At the interface region (pH 8), the probe was distributed in two differently structured environments that significantly modifies by increasing temperature. Insulin loading within the H(II) mesophase decreased the order and microviscosity of both the microenvironments and increased their micropolarity. Finally, the EPR analysis also provides information about the unfolding/denaturation of insulin within the channel at high temperatures.

  7. Soft gamma-ray repeaters and anomalous X-ray pulsars as highly magnetized white dwarfs

    NASA Astrophysics Data System (ADS)

    Mukhopadhyay, Banibrata; Rao, A. R.

    2016-05-01

    We explore the possibility that soft gamma-ray repeaters (SGRs) and anomalous X-ray pulsars (AXPs) are powered by highly magnetized white dwarfs (B-WDs). We take a sample of SGRs and AXPs and provide the possible parameter space in mass, radius, and surface magnetic field based on their observed properties (period and its derivative) and the assumption that these sources obey the mass-radius relation derived for the B-WDs. The radius and magnetic field of B-WDs are adequate to explain energies in SGRs/AXPs as the rotationally powered energy. In addition, B-WDs also adequately explain the perplexing radio transient GCRT J1745-3009 as a white dwarf pulsar. Note that the radius and magnetic fields of B-WDs are neither extreme (unlike of highly magnetized neutron stars) nor ordinary (unlike of magnetized white dwarfs, yet following the Chandrasekhar's mass-radius relation (C-WDs)). In order to explain SGRs/AXPs, while the highly magnetized neutron stars require an extra, observationally not well established yet, source of energy, the C-WDs predict large ultra-violet luminosity which is observationally constrained from a strict upper limit. Finally, we provide a set of basic differences between the magnetar and B-WD hypotheses for SGRs/AXPs.

  8. The Magnetar Nature and the Outburst Mechanism of a Transient Anomalous X-ray Pulsar

    NASA Technical Reports Server (NTRS)

    Guver, Tolga; Ozel, Feryal; Gogus, Ersin; Kouveliotou, Chryssa

    2007-01-01

    Anomalous X-ray Pulsars (AXPs) belong to a class of neutron stars believed to harbor the strongest magnetic fields in the universe, as indicated by their energetic bursts and their rapid spindowns. However, a direct measurement of their surface field strengths has not been made to date. It is also not known whether AXP outbursts result from changes in the neutron star magnetic field or crust properties. Here we report the first, spectroscopic measurement of the surface magnetic field strength of an AXP, XTE J1810-197, and solidify its magnetar nature. The field strength obtained from detailed spectral analysis and modeling is remarkably close to the value inferred from the rate of spindown of this source and remains nearly constant during numerous observations spanning over two orders of magnitude in source flux. The surface temperature, on the other hand, declines steadily and dramatically following the 2003 outburst of this source. Our findings demonstrate that heating occurs in the upper neutron star crust during an outburst and sheds light on the transient behaviour of AXPs.

  9. Detailed Physical Modeling Reveals the Magnetar Nature of a Transient Anomalous X-ray Pulsar

    NASA Technical Reports Server (NTRS)

    Guever, T.; Oezel, F.; Goegues, E.; Kouveliotou, C.

    2007-01-01

    Anomalous X-ray Pulsars (AXPs) belong to a class of neutron stars believed to harbor the strongest magnetic fields in the universe, as indicated by their energetic bursts and their rapid spindowns. However, a direct measurement of their surface field strengths has not been made to date. It is also not known whether AXP outbursts result from changes in the neutron star magnetic field or crust properties. Here we report the first, spectroscopic measurement of the surface magnetic field strength of an AXP, XTE J1810-197, and solidify its magnetar nature. The field strength obtained from detailed spectral analysis and modeling is remarkably close to the value inferred from the rate of spindown of this source and remains nearly constant during numerous observations spanning over two orders of magnitude in source flux. The surface temperature, on the other hand, declines steadily and dramatically following the 2003 outburst of this source. Our findings demonstrate that heating occurs in the upper neutron star crust during an outburst and sheds light on the transient behaviour of AXPs.

  10. X-ray and Ultraviolet Spectral Evolution of LMC X-3 During Normal and Anomalous Low States

    NASA Astrophysics Data System (ADS)

    Torpin, Trevor; Boyd, P. T.; Smale, A. P.

    2014-01-01

    The bright black-hole X-ray binary LMC X-3 is a lower-mass high-mass X-ray binary with a 1.7 day orbital period. Both the X-ray source and its bright optical/UV companion show non-periodic high amplitude variability on timescales much longer than this (100-300 days). Previous observations do not present a clean picture of whether Roche-lobe overflow or wind accretion is the dominant mechanism driving this dramatic long-term variability. RXTE monitoring has recently revealed that LMC X-3 undergoes surprising anomalous low states (ALSs), during which the X-ray source is virtually indistinguishable from background, and stays low for three to six months at a time (Smale & Boyd 2012). The cause of these ALSs is not known. NASA's Swift telescope is uniquely capable of shedding light on this mystery by providing simultaneous X-ray, UV, and optical observations of the source during its normal long-term variability. Swift has obtained simultaneous multiwavelength data at a variety of X-ray fluxes while the system was displaying its normal variability state, as well as dense monitoring during an ALS and during a recent normal low state. Comparison of X-ray spectral modeling with the UV variability offers the best chance to disentangle the various sources of UV radiation in the system. We present the results of spectral fitting of the Swift XRT and, when available, XMM/Newton spectra which probe the accretion state of the black hole. We compare these with the UV flux arising from the stellar surface and outer accretion disk, searching for correlations and lags that could reveal whether a substantial fraction of the UV flux is due to reprocessing of X-rays within the system, or arises from another mechanism.

  11. Imaging X-Ray, Optical, and Infrared Observations of the Transient Anomalous X-Ray Pulsar XTE J1810-197

    NASA Astrophysics Data System (ADS)

    Gotthelf, E. V.; Halpern, J. P.; Buxton, M.; Bailyn, C.

    2004-04-01

    We report X-ray imaging, timing, and spectral studies of XTE J1810-197, a 5.54 s pulsar discovered by Ibrahim and coworkers in recent Rossi X-Ray Timing Explorer (RXTE) observations. In a set of short exposures with the High Resolution Camera on board the Chandra X-Ray Observatory, we detect a strongly modulated signal (55%+/-4% pulsed fraction) with the expected period located at (J2000) 18h09m51s08, -19deg43'51.7", with a uncertainty radius of 0.6" (90% confidence level). Spectra obtained with XMM-Newton are well fitted by a two-component model that typically describes anomalous X-ray pulsars (AXPs), an absorbed blackbody plus power law with parameters kT=0.67+/-0.01 keV, Γ=3.7+/-0.2, NH=(1.05+/-0.05)×1022 cm-2, and FX(0.5-10keV)=3.98×10-11 ergs cm-2 s-1. Alternatively, a two-temperature blackbody fit is just as acceptable. The location of CXOU J180951.0-194351 is consistent with a point source seen in archival Einstein, ROSAT, and ASCA images, when its flux was nearly 2 orders of magnitude fainter, and from which no pulsations are found. The spectrum changed dramatically between the ``quiescent'' and ``active'' states; the former can be modeled as a softer blackbody. Using XMM-Newton timing data, we place an upper limit of 0.03 lt-s on any orbital motion in the period range 10 minutes-8 hr. Optical and infrared images obtained on the SMARTS 1.3 m telescope at the Cerro Tololo Inter-American Observatory (CTIO) show no object in the Chandra error circle to limits V=22.5, I=21.3, J=18.9, and K=17.5. Together, these results argue that CXOU J180951.0-194351 is an isolated neutron star, one most similar to the transient AXP AX J1844.8-0256. Continuing study of XTE J1810-197 in various states of luminosity is important for understanding and possibly unifying a growing class of isolated, young neutron stars that are not powered by rotation.

  12. Resonant anomalous x-ray reflectivity as a probe of ion adsorption at solid-liquid interfaces.

    SciTech Connect

    Fenter, P.; Park, C.; Nagy, K. L.; Sturchio, N. C.; Chemistry; Univ. of Illinois at Chicago

    2007-05-23

    We discuss new opportunities to understand processes at the solid-liquid interface using resonant anomalous X-ray reflectivity (RAXR). This approach is illustrated by determination of element-specific density profiles at mica surfaces in aqueous electrolyte solutions containing Rb{sup +} and Sr{sup 2+}. The total interfacial electron density profile is determined by specular reflectivity (i.e., reflected intensity vs. momentum transfer, q, at an energy, E, far from any characteristic absorption edge). RAXR spectra (i.e., intensity vs. E at fixed q) reveal element-specific ion distributions. Key differences in the interaction of Rb{sup +} and Sr{sup 2+} with mica are observed using resonant anomalous X-ray reflectivity: Rb{sup +} adsorbs in a partially hydrated state, but Sr{sup 2+} adsorbs in both fully and partially hydrated states.

  13. 16 yr of RXTE monitoring of five anomalous X-ray pulsars

    SciTech Connect

    Dib, Rim; Kaspi, Victoria M. E-mail: vkaspi@physics.mcgill.ca

    2014-03-20

    We present a summary of the long-term evolution of various properties of the five non-transient anomalous X-ray pulsars (AXPs) 1E 1841–045, RXS J170849.0–400910, 1E 2259+586, 4U 0142+61, and 1E 1048.1–5937, regularly monitored with RXTE from 1996 to 2012. We focus on three properties of these sources: the evolution of the timing, pulsed flux, and pulse profile. We report several new timing anomalies and radiative events, including a putative anti-glitch seen in 1E 2259+586 in 2009, and a second epoch of very large spin-down rate fluctuations in 1E 1048.1–5937 following a large flux outburst. We compile the properties of the 11 glitches and 4 glitch candidates observed from these 5 AXPs between 1996 and 2012. Overall, these monitoring observations reveal several apparent patterns in the behavior of this sample of AXPs: large radiative changes in AXPs (including long-lived flux enhancements, short bursts, and pulse profile changes) are rare, occurring typically only every few years per source; large radiative changes are almost always accompanied by some form of timing anomaly, usually a spin-up glitch; only 20%-30% of timing anomalies are accompanied by any form of radiative change. We find that AXP radiative behavior at the times of radiatively loud glitches is sufficiently similar to suggest common physical origins. The similarity in glitch properties when comparing radiatively loud and radiatively silent glitches in AXPs suggests a common physical origin in the stellar interior. Finally, the overall similarity of AXP and radio pulsar glitches suggests a common physical origin for both phenomena.

  14. Insights into the intramolecular coupling between the N- and C-domains of troponin C derived from high-pressure, fluorescence, nuclear magnetic resonance, and small-angle X-ray scattering studies.

    PubMed

    de Oliveira, Guilherme A P; Rocha, Cristiane B; Marques, Mayra de A; Cordeiro, Yraima; Sorenson, Martha M; Foguel, Débora; Silva, Jerson L; Suarez, Marisa C

    2013-01-01

    Troponin C (TnC), the Ca(2+)-binding component of the troponin complex of vertebrate skeletal muscle, consists of two structurally homologous domains, the N- and C-domains; these domains are connected by an exposed α-helix. Mutants of full-length TnC and of its isolated domains have been constructed using site-directed mutagenesis to replace different Phe residues with Trp. Previous studies utilizing these mutants and high hydrostatic pressure have shown that the apo form of the C-domain is less stable than the N-domain and that the N-domain has no effect on the stability of the C-domain [Rocha, C. B., Suarez, M. C., Yu, A., Ballard, L., Sorenson, M. M., Foguel, D., and Silva, J. L. (2008) Biochemistry 47, 5047-5058]. Here, we analyzed the stability of full-length F29W TnC using structural approaches under conditions of added urea and hydrostatic pressure denaturation; F29W TnC is a fluorescent mutant, in which Phe 29, located in the N-domain, was replaced with Trp. From these experiments, we calculated the thermodynamic parameters (ΔV and ΔG°(atm)) that govern the folding of the intact F29W TnC in the absence or presence of Ca(2+). We found that the C-domain has only a small effect on the structure of the N-domain in the absence of Ca(2+). However, using fluorescence spectroscopy, we demonstrated a significant decrease in the stability of the N-domain in the Ca(2+)-bound state (i.e., when Ca(2+) was also bound to sites III and IV of the C-domain). An accompanying decrease in the thermodynamic stability of the N-domain generated a reduction in ΔΔG°(atm) in absolute terms, and Ca(2+) binding affects the Ca(2+) affinity of the N-domain in full-length TnC. Cross-talk between the C- and N-domains may be mediated by the central helix, which has a smaller volume and likely greater rigidity and stability following binding of Ca(2+) to the EF-hand sites, as determined by our construction of low-resolution three-dimensional models from the small-angle X-ray

  15. Suzaku X-Ray Study of an Anomalous Source XSS J12270-4859

    NASA Astrophysics Data System (ADS)

    Saitou, Kei; Tsujimoto, Masahiro; Ebisawa, Ken; Ishida, Manabu

    2009-08-01

    We report on the results of a Suzaku X-ray observation of XSSJ12270-4859, one of the hard X-ray sources in the INTEGRAL catalogue. This object has been classified as an intermediate polar (IP) by its optical spectra, and a putative X-ray period of ˜860s. With a 30ks exposure by Suzaku, we obtained a well-exposed spectrum in the 0.2--70keV band. We conclude against a previous IP classification based on a lack of Fe Kα emission features in the spectrum and a failure to confirm the previously reported X-ray period. Instead, the X-ray light curve is filled with exotic phenomena, including repetitive flares lasting for ˜100s, occasional dips with no apparent periodicities, spectral hardening after some flares, and bimodal changes pivoting between quiet and active phases. The rapid flux changes, the dips, and the power-law spectrum point toward an interpretation that this is a low-mass X-ray binary. Some temporal characteristics are similar to those in the Rapid Burster and GRO J1744-28, making XSS J12270-4859 a very rare object.

  16. Protein structure determination by single-wavelength anomalous diffraction phasing of X-ray free-electron laser data

    DOE PAGESBeta

    Nass, Karol; Meinhart, Anton; Barends, Thomas R. M.; Foucar, Lutz; Gorel, Alexander; Aquila, Andrew; Botha, Sabine; Doak, R. Bruce; Koglin, Jason; Liang, Mengning; et al

    2016-03-09

    Serial femtosecond crystallography (SFX) at X-ray free-electron lasers (XFELs) offers unprecedented possibilities for macromolecular structure determination of systems that are prone to radiation damage. However, phasing XFEL data de novo is complicated by the inherent inaccuracy of SFX data, and only a few successful examples, mostly based on exceedingly strong anomalous or isomorphous difference signals, have been reported. Here, it is shown that SFX data from thaumatin microcrystals can be successfully phased using only the weak anomalous scattering from the endogenous S atoms. Furthermore, a step-by-step investigation is presented of the particular problems of SAD phasing of SFX data, analysingmore » data from a derivative with a strong anomalous signal as well as the weak signal from endogenous S atoms.« less

  17. Protein structure determination by single-wavelength anomalous diffraction phasing of X-ray free-electron laser data

    PubMed Central

    Nass, Karol; Meinhart, Anton; Barends, Thomas R. M.; Foucar, Lutz; Gorel, Alexander; Aquila, Andrew; Botha, Sabine; Doak, R. Bruce; Koglin, Jason; Liang, Mengning; Shoeman, Robert L.; Williams, Garth; Boutet, Sebastien; Schlichting, Ilme

    2016-01-01

    Serial femtosecond crystallography (SFX) at X-ray free-electron lasers (XFELs) offers unprecedented possibilities for macromolecular structure determination of systems that are prone to radiation damage. However, phasing XFEL data de novo is complicated by the inherent inaccuracy of SFX data, and only a few successful examples, mostly based on exceedingly strong anomalous or isomorphous difference signals, have been reported. Here, it is shown that SFX data from thaumatin microcrystals can be successfully phased using only the weak anomalous scattering from the endogenous S atoms. Moreover, a step-by-step investigation is presented of the particular problems of SAD phasing of SFX data, analysing data from a derivative with a strong anomalous signal as well as the weak signal from endogenous S atoms. PMID:27158504

  18. Polarity characterization by anomalous x-ray dispersion of ZnO films and GaN lateral polar structures

    SciTech Connect

    Shelton, Christopher T.; Sachet, Edward; Paisley, Elizabeth A.; Hoffmann, Marc P.; Rajan, Joseph; Collazo, Ramón; Sitar, Zlatko; Maria, Jon-Paul

    2014-01-28

    We demonstrate the use of anomalous x-ray scattering of constituent cations at their absorption edge, in a conventional Bragg-Brentano diffractometer, to measure absolutely and quantitatively the polar orientation and polarity fraction of unipolar and mixed polar wurtzitic crystals. In one set of experiments, the gradual transition between c+ and c− polarity of epitaxial ZnO films on sapphire as a function of MgO buffer layer thickness is monitored quantitatively, while in a second experiment, we map the polarity of a lateral polar homojunction in GaN. The dispersion measurements are compared with piezoforce microscopy images, and we demonstrate how x-ray dispersion and scanning probe methods can provide complementary information that can discriminate between polarity fractions at a material surface and polarity fractions averaged over the film bulk.

  19. Structural characterization of the pressure-denatured state and unfolding/refolding kinetics of staphylococcal nuclease by synchrotron small-angle X-ray scattering and Fourier-transform infrared spectroscopy.

    PubMed

    Panick, G; Malessa, R; Winter, R; Rapp, G; Frye, K J; Royer, C A

    1998-01-16

    The pressure-induced unfolding of wild-type staphylococcal nuclease (Snase WT) was studied using synchrotron X-ray small-angle scattering (SAXS) and Fourier-transform infrared (FT-IR) spectroscopy, which monitor changes in the tertiary and secondary structural properties of the protein upon pressurization. The experimental results reveal that application of high-pressure up to 3 kbar leads to an approximate twofold increase of the radius of gyration Rg of the native protein (Rg approximately 17 A) and a large broadening of the pair-distance-distribution function, indicating a transition from a globular to an ellipsoidal or extended chain structure. Analysis of the FT-IR amide I' spectral components reveals that the pressure-induced denaturation process sets in at 1.5 kbar at 25 degrees C and is accompanied by an increase in disordered and turn structures while the content of beta-sheets and alpha-helices drastically decreases. The pressure-induced denatured state above 3 kbar retains nonetheless some degree of beta-like secondary structure and the molecule cannot be described as a fully extended random coil. Temperature-induced denaturation involves a further unfolding of the protein molecule which is indicated by a larger Rg value and significantly lower fractional intensities of IR-bands associated with secondary-structure elements. In addition, we have carried out pressure-jump kinetics studies of the secondary-structural evolution and the degree of compactness in the folding/unfolding reactions of Snase. The effect of pressure on the kinetics arises from a larger positive activation volume for folding than for unfolding, and leads to a significant slowing down of the folding rate with increasing pressure. Moreover, the system becomes two-state under pressure. These properties make it ideal for probing multiple order parameters in order to compare the kinetics of changes in secondary structure by pressure-jump FT-IR and chain collapse by pressure-jump SAXS

  20. Emerging applications of small angle solution scattering in structural biology

    PubMed Central

    Chaudhuri, Barnali N

    2015-01-01

    Small angle solution X-ray and neutron scattering recently resurfaced as powerful tools to address an array of biological problems including folding, intrinsic disorder, conformational transitions, macromolecular crowding, and self or hetero-assembling of biomacromolecules. In addition, small angle solution scattering complements crystallography, nuclear magnetic resonance spectroscopy, and other structural methods to aid in the structure determinations of multidomain or multicomponent proteins or nucleoprotein assemblies. Neutron scattering with hydrogen/deuterium contrast variation, or X-ray scattering with sucrose contrast variation to a certain extent, is a convenient tool for characterizing the organizations of two-component systems such as a nucleoprotein or a lipid-protein assembly. Time-resolved small and wide-angle solution scattering to study biological processes in real time, and the use of localized heavy-atom labeling and anomalous solution scattering for applications as FRET-like molecular rulers, are amongst promising newer developments. Despite the challenges in data analysis and interpretation, these X-ray/neutron solution scattering based approaches hold great promise for understanding a wide variety of complex processes prevalent in the biological milieu. PMID:25516491

  1. InGaN Selfassembled Quantum Dots Investigated By X-Ray Diffraction-Anomalous-Fine Structure Technique

    SciTech Connect

    Piskorska, E.; Siebert, M.; Schmidt, T.; Falta, J.; Yamaguchi, T.; Hommel, D.; Renevier, H.

    2007-04-10

    Local chemical composition of InGaN quantum dots grown by molecular-beam epitaxy on GaN virtual substrates was investigated by x-ray diffraction anomalous fine-structure method. Using this approach, we found that the In content increases from 20% at the dot base to 40-50% at the top. From the detailed numerical analysis of the data we were able to reconstruct the local neighborhood of Ga atoms in different positions in the dots, as well as the local elastic relaxation state.

  2. Long-Term Spectral and Temporal Evolution of Anomalous X-Ray Pulsar XTE J1810-197

    NASA Astrophysics Data System (ADS)

    Vurgun, Eda; Gogus, Ersin; Chakraborty, Manoneeta; Guver, Tolga

    2016-07-01

    We present spectral and timing studies of the first transient Anomalous X-ray Pulsar XTE J1810-197, a 5.54 s pulsar discovered in 2003, when its X-ray luminosity increased ~100 fold. We investigate the long-term behaviour of the surface temperature,emitting area, and the pulsed fraction. X-ray spectra are well fitted by a two-component blackbody model in which the cool component is most likely arising from the whole surface of star and the hot component is arising from a relatively small hot spot on it. The spectral analysis has also shown evidence for the presence of an absorbtion line feature around 1.2 keV in almost all observations. We fit this absorption feature with an asymmetric gaussian component since it shows an asymmetric structure. The pulse fraction exhibits slightly different temporal evolution in higher and lower energy bands. We will discuss correlative behaviour between the spectral and timing parameters in order to constrain magnetar cooling models.

  3. Multi-wavelength anomalous diffraction using medium-angle X-ray solution scattering (MADMAX).

    PubMed

    Makowski, L; Bardhan, J; Gore, D; Rodi, D J; Fischetti, R F

    2012-02-22

    Proteins are dynamic molecules whose function in virtually all biological processes requires conformational motion. Direct experimental probes of protein structure in solution are needed to characterize these motions. Anomalous scattering from proteins in solution has the potential to act as a precise molecular ruler to determine the positions of specific chemical groups or atoms within proteins under conditions in which structural changes can take place free from the constraints of crystal contacts. In solution, anomalous diffraction has two components: a set of cross-terms that depend on the relative location of the anomalous centers and the rest of the protein, and a set of pure anomalous terms that depend on the distances between the anomalous centers. The cross-terms are demonstrated here to be observable and to provide direct information about the distance between the anomalous center and the center of mass of the protein. The second set of terms appears immeasurably small in the context of current experimental capabilities. Here, we outline the theory underlying anomalous scattering from proteins in solution, predict the anomalous differences expected on the basis of atomic coordinate sets, and demonstrate the measurement of anomalous differences at the iron edge for solutions of myoglobin and hemoglobin. PMID:22385864

  4. Observation of parametric X-ray radiation in an anomalous diffraction region

    NASA Astrophysics Data System (ADS)

    Alexeyev, V. I.; Eliseyev, A. N.; Irribarra, E.; Kishin, I. A.; Kubankin, A. S.; Nazhmudinov, R. M.

    2016-08-01

    A new possibility to expand the energy region of diffraction processes based on the interaction of relativistic charged particles with crystalline structures is presented. Diffracted photons related to parametric X-ray radiation produced by relativistic electrons are detected below the low energy threshold for the X-ray diffraction mechanism in crystalline structures for the first time. The measurements were performed during the interaction of 7 MeV electrons with a textured polycrystalline tungsten foil and a highly oriented pyrolytic graphite crystal. The experiment results are in good agreement with a developed model based on the PXR kinematical theory. The developed experimental approach can be applied to separate the contributions of real and virtual photons to the total diffracted radiation generated during the interaction of relativistic charged particles with crystalline targets.

  5. Contrast-matched small-angle X-ray scattering from a heavy-atom-labeled protein in structure determination: application to a lead-substituted calmodulin-peptide complex.

    PubMed

    Grishaev, Alexander; Anthis, Nicholas J; Clore, G Marius

    2012-09-12

    The information content in 1-D solution X-ray scattering profiles is generally restricted to low-resolution shape and size information that, on its own, cannot lead to unique 3-D structures of biological macromolecules comparable to all-atom models derived from X-ray crystallography or NMR spectroscopy. Here we show that contrast-matched X-ray scattering data collected on a protein incorporating specific heavy-atom labels in 65% aqueous sucrose buffer can dramatically enhance the power of conventional small- and wide-angle X-ray scattering (SAXS/WAXS) measurements. Under contrast-matching conditions the protein is effectively invisible and the main contribution to the X-ray scattering intensity arises from the heavy atoms, allowing direct extraction of pairwise distances between them. In combination with conventional aqueous SAXS/WAXS data, supplemented by NMR-derived residual dipolar couplings (RDCs) measured in a weakly aligning medium, we show that it is possible to position protein domains relative to one another within a precision of 1 Å. We demonstrate this approach with respect to the determination of domain positions in a complex between calmodulin, in which the four Ca(2+) ions have been substituted by Pb(2+), and a target peptide. The uniqueness of the resulting solution is established by an exhaustive search over all models compatible with the experimental data, and could not have been achieved using aqueous SAXS and RDC data alone. Moreover, we show that the correct structural solution can be recovered using only contrast-matched SAXS and aqueous SAXS/WAXS data. PMID:22908850

  6. Contrast-Matched Small-Angle X-ray Scattering from a Heavy-Atom-Labeled Protein in Structure Determination: Application to a Lead-Substituted Calmodulin-Peptide Complex

    SciTech Connect

    Grishaev, Alexander; Anthis, Nicholas J; Clore, G Marius

    2012-10-29

    The information content in 1-D solution X-ray scattering profiles is generally restricted to low-resolution shape and size information that, on its own, cannot lead to unique 3-D structures of biological macromolecules comparable to all-atom models derived from X-ray crystallography or NMR spectroscopy. Here we show that contrast-matched X-ray scattering data collected on a protein incorporating specific heavy-atom labels in 65% aqueous sucrose buffer can dramatically enhance the power of conventional small- and wide-angle X-ray scattering (SAXS/WAXS) measurements. Under contrast-matching conditions the protein is effectively invisible and the main contribution to the X-ray scattering intensity arises from the heavy atoms, allowing direct extraction of pairwise distances between them. In combination with conventional aqueous SAXS/WAXS data, supplemented by NMR-derived residual dipolar couplings (RDCs) measured in a weakly aligning medium, we show that it is possible to position protein domains relative to one another within a precision of 1 Å. We demonstrate this approach with respect to the determination of domain positions in a complex between calmodulin, in which the four Ca2+ ions have been substituted by Pb2+, and a target peptide. The uniqueness of the resulting solution is established by an exhaustive search over all models compatible with the experimental data, and could not have been achieved using aqueous SAXS and RDC data alone. Moreover, we show that the correct structural solution can be recovered using only contrast-matched SAXS and aqueous SAXS/WAXS data.

  7. Axino dark matter in light of an anomalous X-ray line

    SciTech Connect

    Liew, Seng Pei

    2014-05-01

    Axino as the superpartner of axion that solves the strong CP problem can be a good candidate of dark matter. Inspired by the 3.5 keV X-ray line signal found to be originated from galaxy clusters and Andromeda galaxy, we study axino models with R-parity violations, and point out that axino dark matter with trilinear R-parity violations is an attractive scenario that reproduces the X-ray line. The Peccei-Quinn scale is required to be f{sub a} ∼ O(10{sup 9}–10{sup 11}) GeV for trilinear R-parity violating couplings λ ∼ O(10{sup −3}–10{sup −1}) in order to explain the line signal. Moreover, the right-handed stau is predicted to be light, i.e. ∼ O(100) GeV, and thus can be looked for at the LHC. Cosmological aspects of the model are also discussed in this study.

  8. Rb+ adsorption at the quartz(101)-aqueous interface: comparison of resonant anomalous x-ray reflectivity with ab initio calculations

    DOE PAGESBeta

    Bellucci, Francesco; Lee, Sang Soo; Kubicki, James D.; Bandura, Andrei V.; Zhang, Zhan; Wesolowski, David J.; Fenter, Paul

    2015-01-29

    We study adsorption of Rb+ to the quartz(101)–aqueous interface at room temperature with specular X-ray reflectivity, resonant anomalous X-ray reflectivity, and density functional theory. The interfacial water structures observed in deionized water and 10 mM RbCl solution at pH 9.8 were similar, having a first water layer at height of 1.7 ± 0.1 Å above the quartz surface and a second layer at 4.8 ± 0.1 Å and 3.9 ± 0.8 Å for the water and RbCl solutions, respectively. The adsorbed Rb+ distribution is broad and consists of presumed inner-sphere (IS) and outer-sphere (OS) complexes at heights of 1.8 ±more » 0.1 and 6.4 ± 1.0 Å, respectively. Projector-augmented planewave density functional theory (DFT) calculations of potential configurations for neutral and negatively charged quartz(101) surfaces at pH 7 and 12, respectively, reveal a water structure in agreement with experimental results. These DFT calculations also show differences in adsorbed speciation of Rb+ between these two conditions. At pH 7, the lowest energy structure shows that Rb+ adsorbs dominantly as an IS complex, whereas at pH 12 IS and OS complexes have equivalent energies. The DFT results at pH 12 are generally consistent with the two site Rb distribution observed from the X-ray data at pH 9.8, albeit with some differences that are discussed. In conclusion, surface charge estimated on the basis of the measured total Rb+ coverage was -0.11 C/m2, in good agreement with the range of the surface charge magnitudes reported in the literature.« less

  9. Unique Properties of Thermally Tailored Copper: Magnetically Active Regions and Anomalous X-ray Fluorescence Emissions

    PubMed Central

    2009-01-01

    When high-purity copper (≥99.98%wt) is melted, held in its liquid state for a few hours with iterative thermal cycling, then allowed to resolidify, the ingot surface is found to have many small regions that are magnetically active. X-ray fluorescence analysis of these regions exhibit remarkably intense lines from “sensitized elements” (SE), including in part or fully the contiguous series V, Cr, Mn, Fe, and Co. The XRF emissions from SE are far more intense than expected from known impurity levels. Comparison with blanks and standards show that the thermal “tailoring” also introduces strongly enhanced SE emissions in samples taken from the interior of the copper ingots. For some magnetic regions, the location as well as the SE emissions, although persistent, vary irregularly with time. Also, for some regions extraordinarily intense “sensitized iron” (SFe) emissions occur, accompanied by drastic attenuation of Cu emissions. PMID:20037657

  10. High-energy x-ray anomalous dispersion correction for silicon

    NASA Astrophysics Data System (ADS)

    Deutsch, Moshe; Hart, Michael

    1988-02-01

    Energy-dependent structure factors measured by Saka and Kato [Acta Crystallogr., Sect. A 43, 252 (1987); 43, 255 (1987)] for silicon are analyzed, and values of the real part of the anomalous dispersion correction term f'(ω) extracted for 12 wavelengths in the range 0.3-0.8 Å with an estimated accuracy of a few millielectrons. This is the first experimental set of such data for wavelengths less than 0.56 Å. The agreement with previous high-accuracy data for 0.56 and 0.71 Å is very good. Comparison with nonrelativistic and relativistic theoretical calculations shows excellent agreement down to 0.4 Å with very recent relativistic calculations including multipole and retardation terms. For shorter wavelengths a small deviation between theory and experiment is observed. Possible causes for this are discussed.

  11. Nature versus Nurture: The Origin of Soft Gamma-Ray Repeaters and Anomalous X-Ray Pulsars

    NASA Astrophysics Data System (ADS)

    Marsden, D.; Lingenfelter, R. E.; Rothschild, R. E.; Higdon, J. C.

    2001-03-01

    Soft gamma-ray repeaters (SGRs) and anomalous X-ray pulsars (AXPs) are young and radio-quiet X-ray pulsars that have been rapidly spun-down to slow spin periods clustered in the range 5-12 s. Most of these unusual pulsars also appear to be associated with supernova shell remnants (SNRs) with typical ages less than 30 kyr. By examining the sizes of these remnants versus their ages, we demonstrate that the interstellar media that surrounded the SGR and AXP progenitors and their SNRs were unusually dense compared to the environments around most young radio pulsars and SNRs. We explore the implications of this evidence on magnetar and propeller-based models for the rapid spin-down of SGRs and AXPs. We find that evidence of dense environments is not consistent with the magnetar model unless a causal link can be shown between the development of magnetars and the external interstellar medium. Propeller-driven spin-down by fossil accretion disks for SGRs and AXPs appears to be consistent with dense environments since the environment can facilitate the formation of such a disk. This may occur in two ways: (1) formation of a ``pushback'' disk from the innermost ejecta pushed back by prompt reverse shocks from supernova remnant interactions with massive progenitor wind material stalled in dense surrounding gas or (2) acquisition of disks by a high-velocity neutron stars, which may be able to capture sufficient amounts of comoving outflowing ejecta slowed by the prompt reverse shocks in dense environments.

  12. Cation-selective Pathway of OmpF Porin Revealed by Anomalous X-ray Diffraction

    SciTech Connect

    Dhakshnamoorthy, Balasundaresan; Raychaudhury, Suchismita; Blachowicz, Lydia; Roux, Benoît

    2010-08-13

    The OmpF porin from the Escherichia coli outer membrane folds into a trimer of {beta}-barrels, each forming a wide aqueous pore allowing the passage of ions and small solutes. A long loop (L3) carrying multiple acidic residues folds into the {beta}-barrel pore to form a narrow 'constriction zone'. A strong and highly conserved charge asymmetry is observed at the constriction zone, with multiple basic residues attached to the wall of the {beta}-barrel (Lys16, Arg42, Arg82 and Arg132) on one side, and multiple acidic residues of L3 (Asp107, Asp113, Glu117, Asp121, Asp126, Asp127) on the other side. Several computational studies have suggested that a strong transverse electric field could exist at the constriction zone as a result of such charge asymmetry, giving rise to separate permeation pathways for cations and anions. To examine this question, OmpF was expressed, purified and crystallized in the P63 space group and two different data sets were obtained at 2.6 {angstrom} and 3.0 {angstrom} resolution with K{sup +} and Rb{sup +}, respectively. The Rb{sup +}-soaked crystals were collected at the rubidium anomalous wavelength of 0.8149 {angstrom} and cation positions were determined. A PEG molecule was observed in the pore region for both the K{sup +} and Rb{sup +}-soaked crystals, where it interacts with loop L3. The results reveal the separate pathways of anions and cations across the constriction zone of the OmpF pore.

  13. Anomalously strong two-electron one-photon X-ray decay transitions in CO caused by avoided crossing.

    PubMed

    Couto, Rafael C; Guarise, Marco; Nicolaou, Alessandro; Jaouen, Nicolas; Chiuzbăian, Gheorghe S; Lüning, Jan; Ekholm, Victor; Rubensson, Jan-Erik; Såthe, Conny; Hennies, Franz; Kimberg, Victor; Guimarães, Freddy F; Agren, Hans; Gel'mukhanov, Faris; Journel, Loïc; Simon, Marc

    2016-01-01

    The unique opportunity to study and control electron-nuclear quantum dynamics in coupled potentials offered by the resonant inelastic X-ray scattering (RIXS) technique is utilized to unravel an anomalously strong two-electron one-photon transition from core-excited to Rydberg final states in the CO molecule. High-resolution RIXS measurements of CO in the energy region of 12-14 eV are presented and analyzed by means of quantum simulations using the wave packet propagation formalism and ab initio calculations of potential energy curves and transition dipole moments. The very good overall agreement between the experimental results and the theoretical predictions allows an in-depth interpretation of the salient spectral features in terms of Coulomb mixing of "dark" with "bright" final states leading to an effective two-electron one-photon transition. The present work illustrates that the improved spectral resolution of RIXS spectra achievable today may call for more advanced theories than what has been used in the past.

  14. ANOMALOUS X-RAY PULSARS AND SOFT GAMMA-RAY REPEATERS IN THE OUTER GAP MODEL: CONFRONTING FERMI OBSERVATIONS

    SciTech Connect

    Tong, H.; Song, L. M.; Xu, R. X.

    2011-09-01

    Anomalous X-ray pulsars (AXPs) and soft gamma-ray repeaters (SGRs) are magnetar candidates, i.e., neutron stars powered by a strong magnetic field. If they are indeed magnetars, they will emit high-energy gamma rays that are detectable by the Fermi Large Area Telescope (LAT), according to the outer gap model. However, no significant detection is reported in recent Fermi-LAT observations of all known AXPs and SGRs. Considering the discrepancy between theory and observations, we calculate the theoretical spectra for all AXPs and SGRs with sufficient observational parameters. Our results show that most AXPs and SGRs are high-energy gamma-ray emitters if they are really magnetars. The four AXPs 1E 1547.0-5408, XTE J1810-197, 1E 1048.1-5937, and 4U 0142+61 should have been detected by Fermi-LAT. There is therefore a conflict between the outer gap model in the case of magnetars and Fermi observations. Possible explanations in the magnetar model are discussed. On the other hand, if AXPs and SGRs are fallback disk systems, i.e., accretion-powered for the persistent emissions, most of them are not high-energy gamma-ray emitters. Future deep Fermi-LAT observations of AXPs and SGRs will help us make clear whether they are magnetars or fallback disk systems.

  15. A WHITE DWARF MERGER AS PROGENITOR OF THE ANOMALOUS X-RAY PULSAR 4U 0142+61?

    SciTech Connect

    Rueda, J. A.; Boshkayev, K.; Izzo, L.; Ruffini, R.; Loren-Aguilar, P.; Kuelebi, B.; Aznar-Siguan, G.; Garcia-Berro, E. E-mail: enrique.garcia-berro@upc.edu

    2013-08-01

    It has been recently proposed that massive, fast-rotating, highly magnetized white dwarfs could describe the observational properties of some of soft gamma-ray repeaters and anomalous X-ray pulsars (AXPs). Moreover, it has also been shown that high-field magnetic white dwarfs can be the outcome of white dwarf binary mergers. The products of these mergers consist of a hot central white dwarf surrounded by a rapidly rotating disk. Here we show that the merger of a double degenerate system can explain the characteristics of the peculiar AXP 4U 0142+61. This scenario accounts for the observed infrared excess. We also show that the observed properties of 4U 0142+6 are consistent with an approximately 1.2 M{sub Sun} white dwarf, remnant of the coalescence of an original system made of two white dwarfs of masses 0.6 M{sub Sun} and 1.0 M{sub Sun }. Finally, we infer a post-merging age {tau}{sub WD} Almost-Equal-To 64 kyr and a magnetic field B Almost-Equal-To 2 Multiplication-Sign 10{sup 8} G. Evidence for such a magnetic field may come from the possible detection of the electron cyclotron absorption feature observed between the B and V bands at Almost-Equal-To 10{sup 15} Hz in the spectrum of 4U 0142+61.

  16. Constraints on the Emission and Viewing Geometry of the Transient Anomalous X-ray Pulsar XTE J1810-197

    NASA Technical Reports Server (NTRS)

    Perna, Rosalba; Gotthelf, E. V.

    2008-01-01

    The temporal decay of the flux components of the transient anomalous X-ray pulsar XTE J1 810-197 following its 2002 outburst presents a unique opportunity to probe the emission geometry of a magnetar. Toward this goal, we model the magnitude of the pulsar's modulation in narrow spectral bands over time. Following previous work, we assume that the postoutburst flux is produced in two distinct thermal components arising from a hot spot and a warm concentric ring. We include general relativistic effects on the blackbody spectra due to gravitational redshift and light bending near the stellar surface, which strongly depend on radius. This affects the model fits for the temperature and size of the emission regions. For the hot spot, the observed temporal and energy-dependent pulse modulation is found to require an anisotropic, pencil-beamed radiation pattern. We are able to constrain an allowed range for the angles that the line of sight (psi) and the hot spot pole (xi) make with respect to the spin axis. Within errors, this is defined by the locus of points in the xi-psi plane that lie along the line [xi + beta(R)] [psi + [beta(R)] = const, where beta(R) is a function of the radius R of the star. For a canonical value of R = 12 km, the viewing parameters range from psi = xi = 37deg to (psi, xi) = (85deg, 15deg). We discuss our results in the context of magnetar emission models.

  17. Influence of growth temperature on interdiffusion in uncapped SiGe-islands on Si(001) determined by anomalous x-ray diffraction and reciprocal space mapping

    SciTech Connect

    Schuelli, T.U.; Stoffel, M.; Schmidt, O.G.; Hesse, A.; Stangl, J.; Lechner, R.T.; Wintersberger, E.; Bauer, G.; Sztucki, M.; Metzger, T.H.

    2005-01-15

    The influence of growth temperature in the regime of dome formation in Stranski-Krastanow growth is studied systematically on a series of Ge on Si(001) samples. A combination of complementary x-ray scattering methods is applied, in order to resolve the island size, their strain state, and the composition distribution. The composition is determined using anomalous x-ray diffraction at high momentum transfer in combination with atomic force microscopy and from x-ray reciprocal space mapping. For growth temperatures between 620 and 840 deg. C, the maximum Ge content of the as-grown islands decreases from about 70 to about 22%. The results are corroborated by a selective etching study of the Ge islands.

  18. The 2006-2007 Active Phase Of Anomalous X-Ray Pulsar 4U 0142+61: Radiative and Timing Changes, Bursts, and Burst Spectral Features

    NASA Technical Reports Server (NTRS)

    Gavril, Fotis P.; Dib, Rim; Kaspi, Victoria M.

    2009-01-01

    After at least 6 years of quiescence, Anomalous X-ray Pulsar (AXP) 4U 0142+61 entered an active phase in 2006 March that lasted several months and included six X-ray bursts as well as many changes in the persistent X-ray emission. The bursts, the first seen from this AXP in >11 years of Rossi X-ray Timing Explorer monitoring, all occurred in the interval between 2006 April 6 and 2007 February 7. The burst durations ranged from 8-3x10(exp 3)s. The first five burst spectra are well modeled by blackbodies, with temperatures kT approx. 2 - 6 keV. However, the sixth burst had a complicated spectrum that is well characterized by a blackbody plus three emission features whose amplitude varied throughout the burst. The most prominent feature was at 14.0 keV. Upon entry into the active phase the pulsar showed a significant change in pulse morphology and a likely timing glitch. The glitch had a total frequency jump of (1.9+/-0.4)x10(exp -7) Hz, which recovered with a decay time of 17+/-2 days by more than the initial jump, implying a net spin-down of the pulsar. We discuss these events in the context of the magnetar model.

  19. Long-term timing and glitch characteristics of anomalous X-ray pulsar 1RXS J170849.0–400910

    SciTech Connect

    Muş, Sinem Şaşmaz; Göğüş, Ersin

    2013-12-01

    We present the results of our detailed timing studies of an anomalous X-ray pulsar, 1RXS J170849.0–400910, using Rossi X-ray Timing Explorer (RXTE) observations spanning over ∼6 yr from 2005 until the end of the RXTE mission. We constructed the long-term spin characteristics of the source and investigated the time and energy dependence of the pulse profile and pulsed count rates. We find that the pulse profile and pulsed count rates in the 2-10 keV band do not show any significant variations in ∼6 yr. 1RXS J170849.0–400910 has been the most frequently glitching anomalous X-ray pulsar: three spin-up glitches and three candidate glitches were observed prior to 2005. Our extensive search for glitches later in the timeline resulted in no unambiguous glitches, though we identified two glitch candidates (with Δν/ν ∼ 10{sup –6}) in two data gaps: a strong candidate around MJD 55532 and another one around MJD 54819, which is slightly less robust. We discuss our results in the context of pulsar glitch models and expectancy of glitches within the vortex unpinning model.

  20. Quantification of Site-Specific Cation Exchange in Metal-Organic Frameworks Using Multi-Wavelength Anomalous X-ray Dispersion

    SciTech Connect

    Brozek, Carl K.; Cozzolino, Anthony F.; Teat, Simon J.; Chen, Yu-Sheng; Dinc,; #259; Mircea,

    2013-09-23

    We employed multiwavelength anomalous X-ray dispersion to determine the relative cation occupation at two crystallographically distinct metal sites in Fe2+-, Cu2+-, and Zn2+-exchanged versions of the microporous metal–organic framework (MOF) known as MnMnBTT (BTT = 1,3,5-benzenetristetrazolate). By exploiting the dispersive differences between Mn, Fe, Cu, and Zn, the extent and location of cation exchange were determined from single crystal X-ray diffraction data sets collected near the K edges of Mn2+ and of the substituting metal, and at a wavelength remote from either edge as a reference. Comparing the anomalous dispersion between these measurements indicated that the extent of Mn2+ replacement depends on the identity of the substituting metal. We contrasted two unique methods to analyze this data with a conventional approach and evaluated their limitations with emphasis on the general application of this method to other heterometallic MOFs, where site-specific metal identification is fundamental to tuning catalytic and physical properties.

  1. Determination of dopant site occupancies in Cu-substituted YBa2Cu3O7-δ by differential anomalous x-ray scattering

    NASA Astrophysics Data System (ADS)

    Howland, R. S.; Geballe, T. H.; Laderman, S. S.; Fischer-Colbrie, A.; Scott, M.; Tarascon, J. M.; Barboux, P.

    1989-05-01

    Dopant site occupancies in YBa2Cu3-xMxO7-δ, with M=Fe (x=0.3 and x=0.5), Co (x=0.2 and x=0.5), Ni (x=0.3), and Zn (x=0.3) have been found using differential anomalous x-ray scattering. The Ni and Zn atoms were found to occupy the Cu(1) (``chains'') site and the Cu(2) (``planes'') site in a nearly random distribution. The Fe and Co atoms were found to occupy the Cu(1) site predominantly at low x, with an increasing fraction on the Cu(2) sites as the total amount of dopant increases. In all cases, our results appear to have high statistical significance, with very little sensitivity to expected uncertainties in oxygen content, total dopant content, anomalous corrections to the atomic scattering factor of the dopant, and to relative atomic coordinates assumed in the modeling. We have also discussed the results in the context of existing extended x-ray-absorption fine-structure and neutron-diffraction results, thermogravimetric analysis, and Mössbauer spectra, and Tc and Hall-effect studies.

  2. The 2006-2007 Active Phase of Anomalous X-Ray Pulsar 4U 0142+61: Radiative and Timing Changes, Bursts,and Burst Spectral Features

    NASA Technical Reports Server (NTRS)

    Gavriil, Fotis P.; Dib, Rim; Kaspi, Victoria M.

    2011-01-01

    After at least 6 years of quiescence, Anomalous X-ray Pulsar (AXP) 4U 0142+61 entered an active phase in 2006 March that lasted several months and included six X-ray bursts as well as many changes in the persistent X-ray emission. The bursts, the first seen from this AXP in > 11 years of Rossi X-ray Timing Explorer monitoring, all occurred in the interval between 2006 April 6 and 2007 February 7. The burst durations ranged from 0.4 - 1.8 x 10(exp 3) s. The first five burst spectra are well modeled by blackbodies, with temperatures kT approx 2 - 9 keV. However, the sixth burst had a complicated spectrum that is well characterized by a blackbody plus two emission features whose amplitude varied throughout the burst. The most prominent feature was at 14.0 keV. Upon entry into the active phase the pulsar showed a significant change in pulse morphology and a likely timing glitch. The glitch had a total frequency jump of (1.9+/-0.4) x 10(exp -7) Hz, which recovered with a decay time of 17+/-2 days by more than the initial jump, implying a net spin-down of the pulsar. Within the framework of the magnetar model, the net spin-down of the star could be explained by regions of the superfluid that rotate. slower than the rest. The bursts, flux enhancements, and pulse morphology changes can be explained as arising from crustal deformations due to stresses imposed by the highly twisted internal magnetic field. However, unlike other AXP outbursts, we cannot account for a major twist being implanted in the magnetosphere.

  3. Small angle neutron scattering

    NASA Astrophysics Data System (ADS)

    Cousin, Fabrice

    2015-10-01

    Small Angle Neutron Scattering (SANS) is a technique that enables to probe the 3-D structure of materials on a typical size range lying from ˜ 1 nm up to ˜ a few 100 nm, the obtained information being statistically averaged on a sample whose volume is ˜ 1 cm3. This very rich technique enables to make a full structural characterization of a given object of nanometric dimensions (radius of gyration, shape, volume or mass, fractal dimension, specific area…) through the determination of the form factor as well as the determination of the way objects are organized within in a continuous media, and therefore to describe interactions between them, through the determination of the structure factor. The specific properties of neutrons (possibility of tuning the scattering intensity by using the isotopic substitution, sensitivity to magnetism, negligible absorption, low energy of the incident neutrons) make it particularly interesting in the fields of soft matter, biophysics, magnetic materials and metallurgy. In particular, the contrast variation methods allow to extract some informations that cannot be obtained by any other experimental techniques. This course is divided in two parts. The first one is devoted to the description of the principle of SANS: basics (formalism, coherent scattering/incoherent scattering, notion of elementary scatterer), form factor analysis (I(q→0), Guinier regime, intermediate regime, Porod regime, polydisperse system), structure factor analysis (2nd Virial coefficient, integral equations, characterization of aggregates), and contrast variation methods (how to create contrast in an homogeneous system, matching in ternary systems, extrapolation to zero concentration, Zero Averaged Contrast). It is illustrated by some representative examples. The second one describes the experimental aspects of SANS to guide user in its future experiments: description of SANS spectrometer, resolution of the spectrometer, optimization of spectrometer

  4. New applications of x-ray magnetic circular dichroism

    NASA Astrophysics Data System (ADS)

    Schütz, G.; Fischer, P.; Attenkofer, K.; Ahlers, D.

    1997-01-01

    X-ray magnetic circular dichroism (X-MCD) in core-level absorption is intimately related to the local spin and orbital polarization distribution in the final states, as it is based on angular-momentum conservation and the interplay of exchange and spin-orbit interaction. It provides symmetry and element-selective information about magnetic aspects of electronic structure. In favourable cases spin and orbital contributions to the local magnetic moments can be deduced directly by applying the so-called "sum-rules". Recently studies of the dichroic contributions in the EXAFS energy range have attracted considerable attention. From systematic studies in various systems a direct proportionality between the strengths of the magnetic signal and the spin moment has been found. This can be easily explained by an exchange contribution to the Coulomb backscattering amplitude and gives important new insights into the exchange interactions of low-energy electrons in solids. With the advent of new intense x-ray sources a variety of other x-ray methods, which involve core-level absorption, can be used to study magnetism. Recent examples are magnetic anomalous small-angle x-ray scattering and imaging magnetic domains with a zone-plate x-ray microscope, which both provide a high-resolution quantitative details of the spatial magnetization contributions.

  5. Crowding and Anomalous Capacitance at an Electrode–Ionic Liquid Interface Observed Using Operando X-ray Scattering

    PubMed Central

    2016-01-01

    Room temperature ionic liquids are widely recognized as novel electrolytes with properties very different from those of aqueous solutions, and thus with many potential applications, but observing how they actually behave at electrolytic interfaces has proved to be challenging. We have studied the voltage-dependent structure of [TDTHP]+[NTF2]− near its interface with an electrode, using in situ synchrotron X-ray reflectivity. An anion-rich layer develops at the interface above a threshold voltage of +1.75 V, and the layer thickness increases rapidly with voltage, reaching ∼6 nm (much larger that the anion dimensions) at +2.64 V. These results provide direct confirmation of the theoretical prediction of “crowding” of ions near the interface. The interfacial layer is not purely anionic but a mixture of up to ∼80% anions and the rest cations. The static differential capacitance calculated from X-ray measurements shows an increase at higher voltages, consistent with a recent zero-frequency capacitance measurement but inconsistent with ac capacitance measurements. PMID:27163044

  6. Synchrotron X-ray diffraction investigation of the anomalous behavior of ice during freezing of aqueous systems.

    PubMed

    Varshney, Dushyant B; Elliott, James A; Gatlin, Larry A; Kumar, Satyendra; Suryanarayanan, Raj; Shalaev, Evgenyi Y

    2009-05-01

    Simple aqueous systems, i.e., phosphate-glycine buffers and pure water, were studied at subambient temperatures by X-ray difractometry using a high-intensity synchrotron radiation source at the Advanced Photon Source of Argonne National Laboratory. Complex X-ray diffraction (XRD) patterns, with two or more poorly resolved peaks in place of each of the four diagnostic peaks of hexagonal ice, 100, 002, 101, and 102, referred as "splitting", were observed in the majority of cases. The splitting of up to 0.05 A (d-spacing) was detected for 100, 002, and 101 peaks, whereas 102 peak was less affected. Deformation of the lattice of hexagonal ice, probably due to local stress created on the ice/ice or ice/container interface during water-to-ice transformation, is proposed as a possible mechanism for the observed splitting of XRD peaks. Using molecular modeling, it was estimated that the observed shifts in the peak positions are equivalent to applying a hydrostatic pressure of 2-3 kbars. The splitting can be used to quantify stresses during freezing, which could improve our understanding of the role of water-to-ice transformation on the destabilization of proteins and other biological systems. PMID:19358549

  7. Synchrotron X-ray Diffraction Investigation of the Anomalous Behavior of Ice During Freezing of Aqueous Systems

    SciTech Connect

    Varshney, Dushyant B.; Elliott, James A.; Gatlin, Larry A.; Kumar, Satyendra; Suryanarayanan, Raj; Shalaev, Evgenyi Y.

    2009-06-01

    Simple aqueous systems, i.e., phosphate-glycine buffers and pure water, were studied at subambient temperatures by X-ray difractometry using a high-intensity synchrotron radiation source at the Advanced Photon Source of Argonne National Laboratory. Complex X-ray diffraction (XRD) patterns, with two or more poorly resolved peaks in place of each of the four diagnostic peaks of hexagonal ice, 100, 002, 101, and 102, referred as 'splitting', were observed in the majority of cases. The splitting of up to 0.05 {angstrom} (d-spacing) was detected for 100, 002, and 101 peaks, whereas 102 peak was less affected. Deformation of the lattice of hexagonal ice, probably due to local stress created on the ice/ice or ice/container interface during water-to-ice transformation, is proposed as a possible mechanism for the observed splitting of XRD peaks. Using molecular modeling, it was estimated that the observed shifts in the peak positions are equivalent to applying a hydrostatic pressure of 2-3 kbars. The splitting can be used to quantify stresses during freezing, which could improve our understanding of the role of water-to-ice transformation on the destabilization of proteins and other biological systems.

  8. X-ray study of the anomalous thermal hystereses of the modulation wavevectors in Cs2HgCl4

    NASA Astrophysics Data System (ADS)

    Bagautdinov, Bagautdin; Shaw, Zachery; Orlov, Andrii; Aliev, Marat A.

    2016-05-01

    A rich sequence of structural modulations in Cs2HgCl4 as a function of temperature was studied by means of X-ray diffraction. Accurate satellite-position measurements on the cooling and heating paths of the crystal revealed abnormal thermal hystereses for incommensurate phases and coexistences of neighboring commensurate phases. A well-defined X-ray picture of the a-axis modulated phases in the range of 221-184 K were observed on the heating path, while the c-axis modulated phases existing below 184 K were definitely detected on the cooling path. The proper conditions for a precise phase diagram of Cs2HgCl4 can be correlated with relatively defect-free transformations of a-axis modulations at heating and of c-axis modulations at cooling. The peculiarity of Cs2HgCl4 to switch modulation direction among the a- and c-axes at 184 K allows us deliberately accumulate and thus control a majority of mobile defects on the mutually perpendicular (100) or (001) planes by possessing crystal within temperature domain of a- or c-axes modulations, respectively.

  9. An in situ study using anomalous wide angle X-ray scattering and X-ray absorption spectroscopy of the binary metal oxide catalytic system SnO2-ZnAI2O4 supported on alumina

    NASA Astrophysics Data System (ADS)

    Revel, R.; Bazin, D.; Bouchet-Fabre, B.; Seigneurin, A.; Kihn, Y.

    2002-07-01

    A fine structural description of the local order around zinc and tin atoms of a binary metal oxide catalyst, namely SnO2-ZnAl2O4/AI2O3 which can be used as a DeNOx catalyst, is achieved through XAS (X-ray absorption Spectroscopy) and AWAXS (Anomalous wide angle X-ray scattering). The analysis of the data was supported by ab initio calculations based on the multiple scattering processes for the XAS spectroscopy and ab initio calculations based on the Debye equation in the case of anomalous scattering. We found that the tetrahedral sites occupied by the zinc atoms are not completely filled and that part of the zinc atoms are engaged in a SnO2 like structure. Also, it seems that most of the tin atoms are engaged in tin dioxide clusters. For the set of in situ XAS experiments done at the K Zn edge and K Sn edge, no significant modification of the interatomic distances around each of the two metals versus the reactive gases are measured. Taking into account the previous results obtained on the monoxide metal supported catalyst ZnAl2O4/Al2O3, we can assume thus that only a dramatic lack of occupancy on the metal site favours an incursion of light atoms in the network. This structural property can explain in return the expansion of the crystallographic cell as well as a significant increased of the Debye-Waller factor associated to zinc-zinc pairs. Une description détaillée de l'ordre local autour du zinc et de l'étain est effectuée sur un catalyseur SnO2-ZnAl2O4/AI2O3 par deux techniques spécifiques au rayonnement synchrotron, la spectroscopie d'absorption X et la diffraction anomale. Une attention particulière est portée sur l'analyse des données. En ce qui concerne la spectroscopie d'absorption X, celle-ci s'effectue par le biais de logiciels prenant en compte les processus de diffusion multiple du photoélectron. La simulation numérique des différentielles obtenues par soustraction des diagrammes de diffraction s'effectue à partir de l'équation de Debye en

  10. Rb+ adsorption at the quartz(101)-aqueous interface: comparison of resonant anomalous x-ray reflectivity with ab initio calculations

    SciTech Connect

    Bellucci, Francesco; Lee, Sang Soo; Kubicki, James D.; Bandura, Andrei V.; Zhang, Zhan; Wesolowski, David J.; Fenter, Paul

    2015-01-29

    We study adsorption of Rb+ to the quartz(101)–aqueous interface at room temperature with specular X-ray reflectivity, resonant anomalous X-ray reflectivity, and density functional theory. The interfacial water structures observed in deionized water and 10 mM RbCl solution at pH 9.8 were similar, having a first water layer at height of 1.7 ± 0.1 Å above the quartz surface and a second layer at 4.8 ± 0.1 Å and 3.9 ± 0.8 Å for the water and RbCl solutions, respectively. The adsorbed Rb+ distribution is broad and consists of presumed inner-sphere (IS) and outer-sphere (OS) complexes at heights of 1.8 ± 0.1 and 6.4 ± 1.0 Å, respectively. Projector-augmented planewave density functional theory (DFT) calculations of potential configurations for neutral and negatively charged quartz(101) surfaces at pH 7 and 12, respectively, reveal a water structure in agreement with experimental results. These DFT calculations also show differences in adsorbed speciation of Rb+ between these two conditions. At pH 7, the lowest energy structure shows that Rb+ adsorbs dominantly as an IS complex, whereas at pH 12 IS and OS complexes have equivalent energies. The DFT results at pH 12 are generally consistent with the two site Rb distribution observed from the X-ray data at pH 9.8, albeit with some differences that are discussed. In conclusion, surface charge estimated on the basis of the measured total Rb+ coverage was -0.11 C/m2, in good agreement with the range of the surface charge magnitudes reported in the literature.

  11. Long-range structure of Cu(InxGa1-x)3Se5: A complementary neutron and anomalous x-ray diffraction study

    NASA Astrophysics Data System (ADS)

    Lehmann, S.; Marrón, D. fürtes; León, M.; Feyerherm, R.; Dudzik, E.; Friedrich, E. J.; Tovar, M.; Tomm, Y.; Wolf, C.; Schorr, S.; Schedel-Niedrig, Th.; Lux-Steiner, M. Ch.; Merino, J. M.

    2011-01-01

    Distinguishing the scattering contributions of isoelectronic atomic species by means of conventional x-ray- and/or electron diffraction techniques is a difficult task. Such a problem occurs when determining the crystal structure of compounds containing different types of atoms with equal number of electrons. We propose a new structural model of Cu(InxGa1-x)3Se5 which is valid for the entire compositional range of the CuIn3Se5-CuGa3Se5 solid solution. Our model is based on neutron and anomalous x-ray diffraction experiments. These complementary techniques allow the separation of scattering contributions of the isoelectronic species Cu+ and Ga3+, contributing nearly identically in monoenergetic x-ray diffraction experiments. We have found that CuIII3Se5 (III=In,Ga) in its room temperature near-equilibrium modification exhibits a modified stannite structure (space group I4¯2m). Different occupation factors of the species involved, Cu+, In3+, Ga3+, and vacancies have been found at three different cationic positions of the structure (Wyckoff sites 2a, 2b, and 4d) depending on the composition of the compound. Significantly, Cu+ does not occupy the 2b site for the In-free compound, but does for the In-containing case. Structural parameters, including lattice constants, tetragonal distortions, and occupation factors are given for samples covering the entire range of the CuIn3Se5-CuGa3Se5 solid solution. At the light of the result, the denotation of Cu-poor 1:3:5 compounds as chalcopyrite-related materials is only valid in reference to their composition.

  12. Chain Packing in the Inverted Hexagonal Phase of Phospholipids: A Study by X-ray Anomalous Diffraction on Bromine-Labeled Chains

    SciTech Connect

    Pan,D.; Wang, W.; Liu, W.; Yang, L.; Huang, H.

    2006-01-01

    Although lipid phases are routinely studied by X-ray diffraction, construction of their unit cell structures from the diffraction data is difficult except for the lamellar phases. This is due to the well-known phase problem of X-ray diffraction. Here we successfully applied the multiwavelength anomalous dispersion (MAD) method to solve the phase problem for an inverted hexagonal phase of a phospholipid with brominated chains. Although the principle of the MAD method for all systems is the same, we found that for lipid structures it is necessary to use a procedure of analysis significantly different from that used for protein crystals. The inverted hexagonal phase has been used to study the chain packing in a hydrophobic interstice where three monolayers meet. Hydrophobic interstices are of great interest, because they occur in the intermediate states of membrane fusion. It is generally believed that chain packing in such a region is energy costly. Consequently, it has been speculated that the inverted lipid tube is likely to deviate from a circular shape, and the chain density distribution might be nonuniform. The bromine distribution obtained from the MAD analysis provides the information for the chain packing in the hexagonal unit cell. The intensity of the bromine distribution is undulated around the unit cell. The analysis shows that the lipid chains pack the hexagonal unit cell at constant volume per chain, with no detectable effect from a high-energy interstitial region.

  13. Precise Localization of the Soft Gamma Repeater SGR 1627-41 with Chandra and the Anomalous X-Ray Pulsar AXP 1E1841-045 with Chandra

    NASA Technical Reports Server (NTRS)

    Wachter, Stefanie; Patel, Sandeep K.; Kouveliotou, Chryssa; Bouchet, Patrice; Ozel, Feryal; Tennant, Allyn F.; Woods, Peter M.; Hurley, Kevin; Becker, Werner; Slane, Patrick

    2004-01-01

    We present precise localizations of AXP 1E184-045 and SGR 1627-41 with Chandra. We obtained new infrared observations of SGR 1627-41 and reanalyzed archival observations of AXP 1E1841-045 in order to refine their positions and search for infrared counterparts. A faint source is detected inside the error circle of AXP 1E1841-045. In the case of SGR 1627-41, several sources are located within the error radius of the X-ray position, and we discuss the likelihood of one of them being the counterpart. We compare the properties of our candidates to those of other known anomalous X-ray pulsar (AXP) and soft gamma repeater (SGR) counterparts. We find that the counterpart candidates for SGR 1627-41 and SGR 1806-20 would have to be intrinsically much brighter than AXPs in order to have counterparts detectable with the observational limits currently available for these sources. To confirm the reported counterpart of SGR 1806-20, we obtained new infrared observations during the 2003 July burst activation of the source. No brightening of the suggested counterpart is detected, implying that the counterpart of SGR 1806-20 remains yet to be identified.

  14. Structural and chemical ordering of Heusler CoxMnyGez epitaxial films on Ge (111). Quantitative study using traditional and anomalous x-ray diffraction techniques

    DOE PAGESBeta

    Collins, B. A.; Chu, Y.; He, L.; Haskel, D.; Tsui, F.

    2015-12-14

    We found that epitaxial films of CoxMnyGez grown on Ge (111) substrates by molecular-beam-epitaxy techniques have been investigated as a continuous function of composition using combinatorial synchrotron x-ray diffraction (XRD) and x-ray fluorescence (XRF) spectroscopy techniques. A high-resolution ternary epitaxial phase diagram is obtained, revealing a small number of structural phases stabilized over large compositional regions. Ordering of the constituent elements in the compositional region near the full Heusler alloy Co2MnGe has been examined in detail using both traditional XRD and a new multiple-edge anomalous diffraction (MEAD) technique. Multiple-edge anomalous diffraction involves analyzing the energy dependence of multiple reflections acrossmore » each constituent absorption edge in order to detect and quantify the elemental distribution of occupation in specific lattice sites. Results of this paper show that structural and chemical ordering are very sensitive to the Co : Mn atomic ratio, such that the ordering is the highest at an atomic ratio of 2 but significantly reduced even a few percent off this ratio. The in-plane lattice is nearly coherent with that of the Ge substrate, while the approximately 2% lattice mismatch is accommodated by the out-of-plane tetragonal strain. Furthermore, the quantitative MEAD analysis reveals no detectable amount (<0.5%) of Co-Mn site swapping, but instead high levels (26%) of Mn-Ge site swapping. Increasing Ge concentration above the Heusler stoichiometry (Co 0.5 Mn 0.25 Ge 0.25 ) is shown to correlate with increased lattice vacancies, antisites, and stacking faults, but reduced lattice relaxation. The highest degree of chemical ordering is observed off the Heusler stoichiometry with a Ge enrichment of 5 at.%.« less

  15. A structural study of ion permeation in OmpF porin from anomalous X-ray diffraction and molecular dynamics simulations.

    PubMed

    Dhakshnamoorthy, Balasundaresan; Ziervogel, Brigitte K; Blachowicz, Lydia; Roux, Benoît

    2013-11-01

    OmpF, a multiionic porin from Escherichia coli, is a useful protypical model system for addressing general questions about electrostatic interactions in the confinement of an aqueous molecular pore. Here, favorable anion locations in the OmpF pore were mapped by anomalous X-ray scattering of Br(–) ions from four different crystal structures and compared with Mg(2+) sites and Rb(+) sites from a previous anomalous diffraction study to provide a complete picture of cation and anion transfer paths along the OmpF channel. By comparing structures with various crystallization conditions, we find that anions bind in discrete clusters along the entire length of the OmpF pore, whereas cations find conserved binding sites with the extracellular, surface-exposed loops. Results from molecular dynamics simulations are consistent with the experimental data and help highlight the critical residues that preferentially contact either cations or anions during permeation. Analysis of these results provides new insights into the molecular mechanisms that determine ion selectivity in OmpF porin.

  16. Determination of Dopant Site Occupancies in Copper - Yttrium-Barium by a New Application of Differential Anomalous X-Ray Scattering.

    NASA Astrophysics Data System (ADS)

    Gustafson, Rebecca Howland

    Dopant site occupancies in YBa_2 Cu_{rm 3-x}M _{rm x}O _{7-delta}, with M representing Fe (x = 0.3 and x = 0.5), Co (x = 0.2 and x = 0.5), Ni (x = 0.3) and Zn (x = 0.3) have been determined using an new application of differential anomalous x-ray scattering. The Ni and Zn atoms were found to occupy the Cu(1) ("chains") site and the Cu(2) ("planes") site in a nearly random distribution. The Fe and Co atoms were found to occupy the Cu(1) site predominantly at low x, with an increasing fraction on the Cu(2) sites as the total amount of dopant increases. In all cases, the results appear to have high statistical significance, with very little sensitivity to expected uncertainties in oxygen content, total dopant content, anomalous corrections to the atomic scattering factor of the dopant, and to relative atomic coordinates assumed in the modeling. The results are also discussed in the context of existing EXAFS and neutron diffraction results, thermogravimetric analysis and Mossbauer spectra, and T_{rm c} and Hall-effect studies.

  17. RXTE Monitoring of the Anomalous X-ray Pulsar 1E 1048.1-5937: Long-Term Variability and the 2007 March Event

    NASA Technical Reports Server (NTRS)

    Dib, Rim; Kaspi, Victoria M.; Gavriil, Fotis P.

    2009-01-01

    After three years of no unusual activity, Anomalous X-ray Pulsar 1E 1048.1-5937 reactivated in 2007 March. We report on the detection of a large glitch (deltav/v = 1.63(2) x 10(exp -5)) on 2007 March 26 (MJD 54185.9), contemporaneous with the onset of a pulsed-flux flare, the third flare observed from this source in 10 years of monitoring with the Rossi X-ray Timing Explorer. Additionally, we report on a detailed study of the evolution of the timing properties, the pulsed flux, and the pulse profile of this source as measured by RXTE from 1996 July to 2008 January. In our timing study, we attempted phase coherent timing of all available observations. We show that in 2001, a timing anomaly of uncertain nature occurred near the rise of the first pulsed flux flare; we show that a likely glitch (deltav/v = 2.91(9) x 10(exp -6)) occurred in 2002, near the rise of the second flare, and we present a detailed description of the variations in the spin-down. In our pulsed flux study, we compare the decays of the three flares and discuss changes in the hardness ratio. In our pulse profile study, we show that the profile exhibited large variations near the peak of the first two flares, and several small short-term profile variations during the most recent flare. Finally, we report on the discovery of a small burst 27 days after the peak of the last flare, the fourth burst discovered from this source. We discuss the relationships between the observed properties in the framework of the magnetar model.

  18. Site Specific X-ray Anomalous Dispersion of the Geometrically Frustrated Kagome´ Magnet Herbertsmithite ZnCu3(OH)6Cl2

    SciTech Connect

    A Freedman; T Han; A Prodi; P Muller; Q Huang; Y Chen; S Webb; Y Lee; T McQueen; D Nocera

    2011-12-31

    Structural characterization, exploiting X-ray scattering differences at elemental absorption edges, is developed to quantitatively determine crystallographic site-specific metal disorder. We apply this technique to the problem of Zn-Cu chemical disorder in ZnCu{sub 3}(OH){sub 6}Cl{sub 2}. This geometrically frustrated kagome antiferromagnet is one of the best candidates for a spin-liquid ground state, but chemical disorder has been suggested as a mundane explanation for its magnetic properties. Using anomalous scattering at the Zn and Cu edges, we determine that there is no Zn occupation of the intralayer Cu sites within the kagome layer; however there is Cu present on the Zn intersite, leading to a structural formula of (Zn{sub 0.85}Cu{sub 0.15})Cu{sub 3}(OH){sub 6}Cl{sub 2}. The lack of Zn mixing onto the kagome lattice sites lends support to the idea that the electronic ground state in ZnCu{sub 3}(OH){sub 6}Cl{sub 2} and its relatives is nontrivial.

  19. Structural analysis of Fe–Mn–O nanoparticles in glass ceramics by small angle scattering

    SciTech Connect

    Raghuwanshi, Vikram Singh; Harizanova, Ruzha; Tatchev, Dragomir; Hoell, Armin; Rüssel, Christian

    2015-02-15

    Magnetic nanocrystals containing Fe and Mn were obtained by annealing of silicate glasses with the composition 13.6Na{sub 2}O–62.9SiO{sub 2}–8.5MnO–15.0Fe{sub 2}O{sub 3−x} (mol%) at 580 °C for different periods of time. Here, we present Small Angle Neutron Scattering using Polarized neutrons (SANSPOL) and Anomalous Small Angle X-ray Scattering (ASAXS) investigation on these glass ceramic samples. Analysis of scattering data from both methods reveals the formation of spherical core–shell type of nanoparticles with mean sizes between 10 nm and 100 nm. ASAXS investigation shows the particles have higher concentration of iron atoms and the shell like region surrounding the particles is enriched in SiO{sub 2}. SANSPOL investigation shows the particles are found to be magnetic and are surrounded by a non-magnetic shell-like region. - Graphical abstract: Magnetic spherical core–shell nanoparticles in glass ceramics: SANSPOL and ASAXS investigations. - Highlights: • Formation and growth mechanisms of magnetic nanoparticles in silicate glass. • SANSPOL and ASAXS methods employed to evaluate quantitative information. • Analyses showed formation of nanoparticles with spherical core–shell structures. • Core of the particle is magnetic and surrounded by weak magnetic shell like region.

  20. Three XMM-Newton observations of the anomalous X-ray pulsar 1E 1048.1-5937: Long term variations in spectrum and pulsed fraction

    NASA Astrophysics Data System (ADS)

    Tiengo, A.; Mereghetti, S.; Turolla, R.; Zane, S.; Rea, N.; Stella, L.; Israel, G. L.

    2005-07-01

    We report the results of a recent (July 2004) XMM-Newton Target of Opportunity observation of the Anomalous X-ray Pulsar 1E 1048.1-5937 together with a detailed re-analysis of previous observations carried out in 2000 and 2003. In July 2004 the source had a 2-10 keV flux of 6.2 × 10-12 erg cm-2 s-1 and a pulsed fraction PF = 0.68. Comparison of the three data sets shows the presence of an anti-correlation between flux and pulsed fraction, implying that previous estimates of the source energetics based on the assumption of a large and constant pulsed fraction might be significantly underestimated. The source spectrum is well described by a power law plus blackbody model (kT 0.63 keV, photon index Γ 2.7-3.5) or, alternatively, by the sum of two blackbodies of which the hotter is Comptonized by relativistic electrons. In this case the temperatures are kT{_1} 0.2-0.3 keV and kT{_2} 0.4-0.5 keV and the emitting area of the cooler component is consistent with the whole neutron star surface. The long-term luminosity variation of a factor ⪆2 is accompanied by relatively small variations in the spectral shape. Phase-resolved spectroscopy indicates a harder spectrum together with the pulse maximum. No spectral features have been detected with 4σ limits on the equivalent width in the range 10-220 eV, depending on line energy and width.

  1. Time-lapse anomalous X-ray diffraction shows how Fe(2+) substrate ions move through ferritin protein nanocages to oxidoreductase sites.

    PubMed

    Pozzi, Cecilia; Di Pisa, Flavio; Lalli, Daniela; Rosa, Camilla; Theil, Elizabeth; Turano, Paola; Mangani, Stefano

    2015-04-01

    Ferritin superfamily protein cages reversibly synthesize internal biominerals, Fe2O3·H2O. Fe(2+) and O2 (or H2O2) substrates bind at oxidoreductase sites in the cage, initiating biomineral synthesis to concentrate iron and prevent potentially toxic reactions products from Fe(2+)and O2 or H2O2 chemistry. By freezing ferritin crystals of Rana catesbeiana ferritin M (RcMf) at different time intervals after exposure to a ferrous salt, a series of high-resolution anomalous X-ray diffraction data sets were obtained that led to crystal structures that allowed the direct observation of ferrous ions entering, moving along and binding at enzyme sites in the protein cages. The ensemble of crystal structures from both aerobic and anaerobic conditions provides snapshots of the iron substrate bound at different cage locations that vary with time. The observed differential occupation of the two iron sites in the enzyme oxidoreductase centre (with Glu23 and Glu58, and with Glu58, His61 and Glu103 as ligands, respectively) and other iron-binding sites (with Glu53, His54, Glu57, Glu136 and Asp140 as ligands) reflects the approach of the Fe(2+) substrate and its progression before the enzymatic cycle 2Fe(2+) + O2 → Fe(3+)-O-O-Fe(3+) → Fe(3+)-O(H)-Fe(3+) and turnover. The crystal structures also revealed different Fe(2+) coordination compounds bound to the ion channels located at the threefold and fourfold symmetry axes of the cage.

  2. Time-lapse anomalous X-ray diffraction shows how Fe2+ substrate ions move through ferritin protein nanocages to oxidoreductase sites

    PubMed Central

    Pozzi, Cecilia; Di Pisa, Flavio; Lalli, Daniela; Rosa, Camilla; Theil, Elizabeth; Turano, Paola; Mangani, Stefano

    2015-01-01

    Ferritin superfamily protein cages reversibly synthesize internal biominerals, Fe2O3·H2O. Fe2+ and O2 (or H2O2) substrates bind at oxidoreductase sites in the cage, initiating biomineral synthesis to concentrate iron and prevent potentially toxic reactions products from Fe2+and O2 or H2O2 chemistry. By freezing ferritin crystals of Rana catesbeiana ferritin M (RcMf) at different time intervals after exposure to a ferrous salt, a series of high-resolution anomalous X-ray diffraction data sets were obtained that led to crystal structures that allowed the direct observation of ferrous ions entering, moving along and binding at enzyme sites in the protein cages. The ensemble of crystal structures from both aerobic and anaerobic conditions provides snapshots of the iron substrate bound at different cage locations that vary with time. The observed differential occupation of the two iron sites in the enzyme oxidoreductase centre (with Glu23 and Glu58, and with Glu58, His61 and Glu103 as ligands, respectively) and other iron-binding sites (with Glu53, His54, Glu57, Glu136 and Asp140 as ligands) reflects the approach of the Fe2+ substrate and its progression before the enzymatic cycle 2Fe2+ + O2 → Fe3+—O—O—Fe3+ → Fe3+—O(H)—Fe3+ and turnover. The crystal structures also revealed different Fe2+ coordination compounds bound to the ion channels located at the threefold and fourfold symmetry axes of the cage. PMID:25849404

  3. Determination of transition metal ion distribution in cubic spinel Co{sub 1.5}Fe{sub 1.5}O{sub 4} using anomalous x-ray diffraction

    SciTech Connect

    Singh, M. N.; Sinha, A. K. Ghosh, Haranath

    2015-08-15

    We report anomalous x-ray diffraction studies on Co ferrite with composition Co{sub 1.5}Fe{sub 1.5}O{sub 4} to obtain the distribution of transition metal ions in tetrahedral and octahedral sites. We synthesize spinel oxide (Co{sub 1.5}Fe{sub 1.5}O{sub 4}) through co-precipitation and subsequent annealing route. The imaginary part (absorption) of the energy dependent anomalous form factor is measured and the real part is calculated theoretically through Kramers–Krönig transformation to analyze anomalous x-ray diffraction peak intensities. Fe and Co K-edge x-ray absorption near edge structure (XANES) spectra are used to estimate charge states of transition metals. Our analysis, within experimental errors, suggests 44% of the tetrahedral sites contain Co in +2 oxidation state and the rest 56% sites contain Fe in +2 and +3 oxidation states. Similarly, 47% of the octahedral sites contain Fe in +3 oxidation states, whereas, the rest of the sites contain Co in +2 and +3 oxidation states. While a distinct pre-edge feature in the Fe K-edge XANES is observed, Co pre-edge remains featureless. Implications of these results to magnetism are briefly discussed.

  4. Windows for X-ray Cryostats

    NASA Astrophysics Data System (ADS)

    Schiavoni, Michael L.; Mulders, Norbert; Lurio, Laurence; Paetkau, Mark; Jemian, Pete R.; Narayanan, Suresh; Sandy, Alec

    2006-09-01

    We have measured the small angle x-ray scattering from Kapton and Mylar films used as cryostat windows. Both Mylar and Kapton can be used to make very simple, demountable, superfluid tight windows using indium o-ring seals. Aluminized Mylar offers the advantage of effectively blocking infrared radiation while simultaneously reducing helium diffusion rates at room temperature by a factor of 25.

  5. Determining Equilibrium Lamellar Thickness by Small Angle Light Scattering

    NASA Astrophysics Data System (ADS)

    Li, Ying; Akpalu, Yvonne

    2002-03-01

    The crystallization and melting behavior of homogeneous copolymers of ethylene with butene and hexene is studied by small angle light scattering (SALS). We show that the final melting temperature (T_m^f), which corresponds to equilibrium between a melt with an overall ethylene sequence concentration (equal to the mole fraction of crystallizable units) and the thickest lamellar crystals can be determined from the SALS melting measurements. The T_m^f values, determined from the temperature at which the SALS HV or VV invariant vanishes during the melting, are substantially higher (7 to 10 °C) than those obtained from small angle x-ray (SAXS), wide angle x-ray scattering (WAXS) and differential scanning calorimetry (DSC). Thus our measurements indicate that SAXS, WAXS and DSC underestimate the lamellar thickness (l_f) of the largest crystals, a parameter necessary for estimating thermodynamic and kinetic parameters for ethylene copolymers. We also investigate T_m^f as a function of crystallization time (ranging from 1 hr to 72 hr) and heating rate. We discuss the implications of our SALS approach for estimating T_m^f, lf and lamellar morphological parameters from x-ray scattering.

  6. Joint x-ray

    MedlinePlus

    X-ray - joint; Arthrography; Arthrogram ... x-ray technologist will help you position the joint to be x-rayed on the table. Once in place, pictures are taken. The joint may be moved into other positions for more ...

  7. Chest X-Ray

    MedlinePlus

    ... by: Image/Video Gallery Your radiologist explains chest x-ray. Transcript Welcome to Radiology Info dot org! Hello, ... you about chest radiography also known as chest x-rays. Chest x-rays are the most commonly performed ...

  8. Cosmic x ray physics

    NASA Technical Reports Server (NTRS)

    Mccammon, Dan; Cox, D. P.; Kraushaar, W. L.; Sanders, W. T.

    1991-01-01

    The annual progress report on Cosmic X Ray Physics for the period 1 Jan. to 31 Dec. 1990 is presented. Topics studied include: soft x ray background, new sounding rocket payload: x ray calorimeter, and theoretical studies.

  9. Cosmic x ray physics

    NASA Technical Reports Server (NTRS)

    Mccammon, Dan; Cox, D. P.; Kraushaar, W. L.; Sanders, W. T.

    1990-01-01

    The annual progress report on Cosmic X Ray Physics is presented. Topics studied include: the soft x ray background, proportional counter and filter calibrations, the new sounding rocket payload: X Ray Calorimeter, and theoretical studies.

  10. Small angle neutron scattering (SANS) and small angle x-ray scattering (SAXS) analysis of polyaniline salts and blends

    SciTech Connect

    Hopkins, A.R.; Rasmussen, P.G.; Basheer, R.A.; Annis, B.K.; Wignall, G.D.

    1996-06-01

    Doped polyaniline emeraldine salts (PANI-ES) exhibit good environmental stability with a high level of conductivity (1 to 300 S/cm). However, they suffer from the fact that they have poor mechanical properties and must be blended with an insulating host polymer to be useful in industrial applications. Polyaniline blends are a new type of conducting material that typically show very low onsets of conductivity unlike that of metal filled blends. This is primarily due to the unique cellular geometry of the PANI-ES that is formed within the insulating host polymer. The formation of this immiscible polymer network may be due in part to structural and conformational differences in the blend components.

  11. Spectral softening in the X-RAY afterglow of GRB 130925A as predicted by the dust scattering model

    SciTech Connect

    Zhao, Yi-Nan; Shao, Lang

    2014-07-01

    Gamma-ray bursts (GRBs) usually occur in a dense star-forming region with a massive circumburst medium. The small-angle scattering of intense prompt X-ray emission off the surrounding dust grains will have observable consequences and sometimes can dominate the X-ray afterglow. In most of the previous studies, only the Rayleigh-Gans (RG) approximation is employed for describing the scattering process, which works accurately for the typical size of grains (with radius of a ≤ 0.1 μm) in the diffuse interstellar medium. When the size of the grains may significantly increase, as in a more dense region where GRBs would occur, the RG approximation may not be valid enough for modeling detailed observational data. In order to study the temporal and spectral properties of the scattered X-ray emission more accurately with potentially larger dust grains, we provide a practical approach using the series expansions of anomalous diffraction (AD) approximation based on the complicated Mie theory. We apply our calculations to understand the puzzling X-ray afterglow of recently observed GRB 130925A that showed a significant spectral softening. We find that the X-ray scattering scenarios with either AD or RG approximation adopted could well reproduce both the temporal and spectral profile simultaneously. Given the plateau present in the early X-ray light curve, a typical distribution of smaller grains as in the interstellar medium would be suggested for GRB 130925A.

  12. Spectral Softening in the X-Ray Afterglow of GRB 130925A as Predicted by the Dust Scattering Model

    NASA Astrophysics Data System (ADS)

    Zhao, Yi-Nan; Shao, Lang

    2014-07-01

    Gamma-ray bursts (GRBs) usually occur in a dense star-forming region with a massive circumburst medium. The small-angle scattering of intense prompt X-ray emission off the surrounding dust grains will have observable consequences and sometimes can dominate the X-ray afterglow. In most of the previous studies, only the Rayleigh-Gans (RG) approximation is employed for describing the scattering process, which works accurately for the typical size of grains (with radius of a <= 0.1 μm) in the diffuse interstellar medium. When the size of the grains may significantly increase, as in a more dense region where GRBs would occur, the RG approximation may not be valid enough for modeling detailed observational data. In order to study the temporal and spectral properties of the scattered X-ray emission more accurately with potentially larger dust grains, we provide a practical approach using the series expansions of anomalous diffraction (AD) approximation based on the complicated Mie theory. We apply our calculations to understand the puzzling X-ray afterglow of recently observed GRB 130925A that showed a significant spectral softening. We find that the X-ray scattering scenarios with either AD or RG approximation adopted could well reproduce both the temporal and spectral profile simultaneously. Given the plateau present in the early X-ray light curve, a typical distribution of smaller grains as in the interstellar medium would be suggested for GRB 130925A.

  13. Chest x-ray

    MedlinePlus

    Chest radiography; Serial chest x-ray; X-ray - chest ... You stand in front of the x-ray machine. You will be told to hold your breath when the x-ray is taken. Two images are usually taken. You will ...

  14. In situ synchrotron based x-ray techniques as monitoring tools for atomic layer deposition

    SciTech Connect

    Devloo-Casier, Kilian Detavernier, Christophe; Dendooven, Jolien

    2014-01-15

    Atomic layer deposition (ALD) is a thin film deposition technique that has been studied with a variety of in situ techniques. By exploiting the high photon flux and energy tunability of synchrotron based x-rays, a variety of new in situ techniques become available. X-ray reflectivity, grazing incidence small angle x-ray scattering, x-ray diffraction, x-ray fluorescence, x-ray absorption spectroscopy, and x-ray photoelectron spectroscopy are reviewed as possible in situ techniques during ALD. All these techniques are especially sensitive to changes on the (sub-)nanometer scale, allowing a unique insight into different aspects of the ALD growth mechanisms.

  15. Crystals for astronomical X-ray spectroscopy

    NASA Technical Reports Server (NTRS)

    Burek, A.

    1976-01-01

    Crystal spectrometric properties and the factors that affect their measurement are discussed. Theoretical and experimental results on KAP are summarized and theoretical results based on the dynamical theory of X-ray diffraction are given for the acid phthalates as well as for the commonly used planes of ADP, PET and EDDT. Anomalous dispersion is found to be important for understanding the details of crystal Bragg reflection properties at long X-ray wavelengths and some important effects are pointed out. The theory of anomalous dispersion is applied to explain the anomalous reflectivity exhibited by KAP at 23.3 A.

  16. The study of pinch regimes based on radiation-enhanced compression and anomalous resistivity phenomena and their effects on hard x-ray emission in a Mather type dense plasma focus device (SABALAN2)

    SciTech Connect

    Piriaei, D.; Javadi, S.; Ghoranneviss, M.; Mahabadi, T. D.; Saw, S. H.; Lee, S.

    2015-12-15

    In this study, by using argon and nitrogen as the filling gases in a Mather type dense plasma focus device at different values of pressure and charging voltage, two different kinds of pinch regimes were observed for each of the gases. The physics of the pinch regimes could be explained by using the two versions of the Lee's computational model which predicted each of the scenarios and clarified their differences between the two gases according to the radiation-enhanced compression and, additionally, predicted the pinch regimes through the anomalous resistivity effect during the pinch time. This was accomplished through the fitting process (simulation) on the current signal. Moreover, the characteristic amplitude and time scales of the anomalous resistances were obtained. The correlations between the features of the plasma current dip and the emitted hard x-ray pulses were observed. The starting time, intensity, duration, and the multiple or single feature of the emitted hard x-ray strongly correlated to the same respective features of the current dip.

  17. Chandra ACIS-S imaging spectroscopy of anomalously faint X-ray emission from Comet 103P/Hartley 2 during the EPOXI encounter

    NASA Astrophysics Data System (ADS)

    Lisse, C. M.; Christian, D. J.; Wolk, S. J.; Dennerl, K.; Bodewits, D.; Combi, M. R.; Lepri, S. T.; Zurbuchen, T. H.; Li, J. Y.; Dello-Russo, N.; Belton, M. J. S.; Knight, M. M.

    2013-02-01

    We present results from the Chandra X-ray Observatory's characterization of the X-ray emission from Comet 103P/Hartley 2, in support of NASA's Deep Impact Extended close flyby of the comet on 04 November 2010. The comet was observed 4 times for a total on target time of ˜60 ks between the 17th of October and 16th of November 2010, with two of the visits occurring during the EPOXI close approach on 04 November and 05 November 2010. X-ray emission from 103P was qualitatively similar to that observed for collisionally thin Comets 2P/Encke (Lisse, C.M. et al. [2005]. Astrophys. J. 635, 1329-1347) and 9P/Tempel 1 (Lisse, C.M. et al. [2007]. Icarus 190, 391-405). Emission morphology offset sunward but asymmetrical from the nucleus and emission lines produced by charge exchange between highly stripped C, N, and O solar wind minor ions and coma neutral gas species were found. The comet was very under-luminous in the X-ray at all times, representing the 3rd faintest comet ever detected (LX = 1.1 ± 0.3 × 1014 erg s-1). The coma was collisionally thin to the solar wind at all times, allowing solar wind ions to flow into the inner coma and interact with the densest neutral coma gas. Localization of the X-ray emission in the regions of the major rotating gas jets was observed, consistent with the major source of cometary neutral gas species being icy coma dust particles. Variable spectral features due to changing solar wind flux densities and charge states were also seen. Modeling of the Chandra observations from the first three visits using observed gas production rates and ACE solar wind ion fluxes with a charge exchange mechanism for the emission is consistent with the temporal and spectral behavior expected for a slow, hot wind typical of low latitude emission from the solar corona interacting with the comet's neutral coma. The X-ray emission during the 4th visit on 16 November 2010 is similar to the unusual behavior seen for Comet 17P/Holmes in 2007 (Christian, D.J. et

  18. Thoracic spine x-ray

    MedlinePlus

    Vertebral radiography; X-ray - spine; Thoracic x-ray; Spine x-ray; Thoracic spine films; Back films ... care provider's office. You will lie on the x-ray table in different positions. If the x-ray ...

  19. Dental x-rays

    MedlinePlus

    X-ray - teeth; Radiograph - dental; Bitewings; Periapical film; Panoramic film; Digital image ... dentist's office. There are many types of dental x-rays. Some of them are: Bitewing. Shows the crown ...

  20. X-ray (image)

    MedlinePlus

    X-rays are a form of ionizing radiation that can penetrate the body to form an image on ... will be shades of gray depending on density. X-rays can provide information about obstructions, tumors, and other ...

  1. X-Ray Lasers

    ERIC Educational Resources Information Center

    Chapline, George; Wood, Lowell

    1975-01-01

    Outlines the prospects of generating coherent x rays using high-power lasers and indentifies problem areas in their development. Indicates possible applications for coherent x rays in the fields of chemistry, biology, and crystallography. (GS)

  2. X Ray Topography

    ERIC Educational Resources Information Center

    Balchin, A. A.

    1974-01-01

    Discusses some aspects in X-ray topography, including formation of dislocations, characteristics of stacking faults, x-ray contrast in defect inspection, Berg-Barrett technique, and Lang traversing crystal and Borrmann's methods. (CC)

  3. X-Ray Imaging

    MedlinePlus

    ... Brain Surgery Imaging Clinical Trials Basics Patient Information X-Ray Imaging Print This Page X-ray imaging is perhaps the most familiar type of imaging. Images produced by X-rays are due to the different absorption rates of ...

  4. X-Rays

    MedlinePlus

    X-rays are a type of radiation called electromagnetic waves. X-ray imaging creates pictures of the inside of your ... different amounts of radiation. Calcium in bones absorbs x-rays the most, so bones look white. Fat and ...

  5. Hand x-ray

    MedlinePlus

    X-ray - hand ... A hand x-ray is taken in a hospital radiology department or your health care provider's office by an ... technician. You will be asked to place your hand on the x-ray table, and keep it ...

  6. Irena : tool suite for modeling and analysis of small-angle scattering.

    SciTech Connect

    Ilavsky, J.; Jemian, P.

    2009-04-01

    Irena, a tool suite for analysis of both X-ray and neutron small-angle scattering (SAS) data within the commercial Igor Pro application, brings together a comprehensive suite of tools useful for investigations in materials science, physics, chemistry, polymer science and other fields. In addition to Guinier and Porod fits, the suite combines a variety of advanced SAS data evaluation tools for the modeling of size distribution in the dilute limit using maximum entropy and other methods, dilute limit small-angle scattering from multiple non-interacting populations of scatterers, the pair-distance distribution function, a unified fit, the Debye-Bueche model, the reflectivity (X-ray and neutron) using Parratt's formalism, and small-angle diffraction. There are also a number of support tools, such as a data import/export tool supporting a broad sampling of common data formats, a data modification tool, a presentation-quality graphics tool optimized for small-angle scattering data, and a neutron and X-ray scattering contrast calculator. These tools are brought together into one suite with consistent interfaces and functionality. The suite allows robust automated note recording and saving of parameters during export.

  7. Burst and Persistent Emission Properties during the Recent Active Episode of the Anomalous X-Ray Pulsar 1E 1841-045

    NASA Technical Reports Server (NTRS)

    Lin, Lin; Kouveliotou, Chryssa; Gogus, Ersin; van der Horst, Alexander J.; Watts, Anna L.; Baring, Matthew G.; Kaneko, Yuki; Wijers, Ralph A. M. J.; Woods, Peter M.; Barthelmy, Scott; Burgess, J. Michael; Chaplin, Vandiver; Gehrels, Neil; Goldstein, Adam; Granot, Jonathan; Guiriec, Sylvain; Mcenery, Julie; Preece, Robert D.; Tierney, David; van der Klis, Michiel; von Kienlin, Andreas; Zhang, Shuang Nan

    2011-01-01

    SWift/BAT detected the first burst from 1E 1841-045 in May 2010 with intermittent burst activity recorded through at least July 2011. Here we present Swift and Fermi/GBM observations of this burst activity and search for correlated changes to the persistent X-ray emission of the source. The T90 durations of the bursts range between 18 - 140 ms, comparable to other magnetar burst durations, while the energy released in each burst ranges between (0.8-25) x 1038 erg, which is in the low side of SGR bursts. We find that the bursting activity did not have a significant effect on the persistent flux level of the source. We argue that the mechanism leading to this sporadic burst activity in IE 1841-045 might not involve large scale restructuring (either crustal or magnetospheric) as seen in other magnetar sources.

  8. Burst and Persistent Emission Properties during the Recent Active Episode of the Anomalous X-Ray Pulsar 1E 1841-045

    NASA Astrophysics Data System (ADS)

    Lin, Lin; Kouveliotou, Chryssa; Göǧüş, Ersin; van der Horst, Alexander J.; Watts, Anna L.; Baring, Matthew G.; Kaneko, Yuki; Wijers, Ralph A. M. J.; Woods, Peter M.; Barthelmy, Scott; Burgess, James Michael; Chaplin, Vandiver; Gehrels, Neil; Goldstein, Adam; Granot, Jonathan; Guiriec, Sylvain; Mcenery, Julie; Preece, Robert D.; Tierney, David; van der Klis, Michiel; von Kienlin, Andreas; Zhang, Shuang Nan

    2011-10-01

    The Swift/Burst Alert Telescope detected the first burst from 1E 1841-045 in 2010 May with intermittent burst activity recorded through at least 2011 July. Here we present Swift and Fermi/Gamma-ray Burst Monitor observations of this burst activity and search for correlated changes to the persistent X-ray emission of the source. The T 90 durations of the bursts range between 18 and 140 ms, comparable to other magnetar burst durations, while the energy released in each burst ranges between (0.8-25) × 1038 erg, which is on the low side of soft gamma repeater bursts. We find that the bursting activity did not have a significant effect on the persistent flux level of the source. We argue that the mechanism leading to this sporadic burst activity in 1E 1841-045 might not involve large-scale restructuring (either crustal or magnetospheric) as seen in other magnetar sources.

  9. Crystallization and X-ray diffraction analysis of a novel immune-type receptor from Ictalurus punctatus and phasing by selenium anomalous dispersion methods

    SciTech Connect

    Ostrov, David A. Hernández Prada, José A.; Haire, Robert N.; Magis, Andrew T.; Bailey, Kate; Litman, Gary W.

    2007-12-01

    A highly diversified novel immune-type receptor from catfish, NITR10, was crystallized to reveal novel mechanisms of immune recognition. X-ray diffraction data from crystals of a novel immune-type receptor (NITR10 from the catfish Ictalurus punctatus) were collected to 1.65 Å resolution and reduced to the primitive hexagonal lattice. Native and selenomethionine derivatives of NITR10 crystallized under different conditions yielded P3{sub 1}21 crystals. SeMet NITR10 was phased to a correlation coefficient of 0.77 by SAD methods and experimental electron-density maps were calculated to 1.65 Å. Five NITR10 molecules are predicted to be present in the asymmetric unit based on the Matthews coefficient.

  10. Structural and chemical ordering of Heusler CoxMnyGez epitaxial films on Ge (111). Quantitative study using traditional and anomalous x-ray diffraction techniques

    SciTech Connect

    Collins, B. A.; Chu, Y.; He, L.; Haskel, D.; Tsui, F.

    2015-12-14

    We found that epitaxial films of CoxMnyGez grown on Ge (111) substrates by molecular-beam-epitaxy techniques have been investigated as a continuous function of composition using combinatorial synchrotron x-ray diffraction (XRD) and x-ray fluorescence (XRF) spectroscopy techniques. A high-resolution ternary epitaxial phase diagram is obtained, revealing a small number of structural phases stabilized over large compositional regions. Ordering of the constituent elements in the compositional region near the full Heusler alloy Co2MnGe has been examined in detail using both traditional XRD and a new multiple-edge anomalous diffraction (MEAD) technique. Multiple-edge anomalous diffraction involves analyzing the energy dependence of multiple reflections across each constituent absorption edge in order to detect and quantify the elemental distribution of occupation in specific lattice sites. Results of this paper show that structural and chemical ordering are very sensitive to the Co : Mn atomic ratio, such that the ordering is the highest at an atomic ratio of 2 but significantly reduced even a few percent off this ratio. The in-plane lattice is nearly coherent with that of the Ge substrate, while the approximately 2% lattice mismatch is accommodated by the out-of-plane tetragonal strain. Furthermore, the quantitative MEAD analysis reveals no detectable amount (<0.5%) of Co-Mn site swapping, but instead high levels (26%) of Mn-Ge site swapping. Increasing Ge concentration above the Heusler stoichiometry (Co 0.5 Mn 0.25 Ge 0.25 ) is shown to correlate with increased lattice vacancies, antisites, and stacking faults, but reduced lattice relaxation. The highest degree of chemical ordering is observed off the Heusler stoichiometry with a Ge enrichment of 5 at.%.

  11. Structural and chemical ordering of Heusler C oxM nyG ez epitaxial films on Ge (111): Quantitative study using traditional and anomalous x-ray diffraction techniques

    NASA Astrophysics Data System (ADS)

    Collins, B. A.; Chu, Y. S.; He, L.; Haskel, D.; Tsui, F.

    2015-12-01

    Epitaxial films of C oxM nyG ez grown on Ge (111) substrates by molecular-beam-epitaxy techniques have been investigated as a continuous function of composition using combinatorial synchrotron x-ray diffraction (XRD) and x-ray fluorescence (XRF) spectroscopy techniques. A high-resolution ternary epitaxial phase diagram is obtained, revealing a small number of structural phases stabilized over large compositional regions. Ordering of the constituent elements in the compositional region near the full Heusler alloy C o2MnGe has been examined in detail using both traditional XRD and a new multiple-edge anomalous diffraction (MEAD) technique. Multiple-edge anomalous diffraction involves analyzing the energy dependence of multiple reflections across each constituent absorption edge in order to detect and quantify the elemental distribution of occupation in specific lattice sites. Results of this paper show that structural and chemical ordering are very sensitive to the Co : Mn atomic ratio, such that the ordering is the highest at an atomic ratio of 2 but significantly reduced even a few percent off this ratio. The in-plane lattice is nearly coherent with that of the Ge substrate, while the approximately 2% lattice mismatch is accommodated by the out-of-plane tetragonal strain. The quantitative MEAD analysis further reveals no detectable amount (<0.5%) of Co-Mn site swapping, but instead high levels (26%) of Mn-Ge site swapping. Increasing Ge concentration above the Heusler stoichiometry (C o0.5M n0.25G e0.25) is shown to correlate with increased lattice vacancies, antisites, and stacking faults, but reduced lattice relaxation. The highest degree of chemical ordering is observed off the Heusler stoichiometry with a Ge enrichment of 5 at.%.

  12. Electrochemical in-situ reaction cell for X-ray scattering, diffraction and spectroscopy

    SciTech Connect

    Braun, Artur; Granlund, Eric; Cairns, Elton J.

    2003-01-27

    An electrochemical in-situ reaction cell for hard X-ray experiments with battery electrodes is described. Applications include the small angle scattering, diffraction, and near-edge spectroscopy of lithium manganese oxide electrodes.

  13. Panoramic Dental X-Ray

    MedlinePlus

    ... X-ray? What is Panoramic X-ray? Panoramic radiography , also called panoramic x-ray , is a two- ... Exams Dental Cone Beam CT X-ray, Interventional Radiology and Nuclear Medicine Radiation Safety About this Site ...

  14. Experimental methods in the study of neutron scattering at small angles

    SciTech Connect

    Dragolici, Cristian A.

    2014-11-24

    Small angle scattering (SAS) is the collective name given to the techniques of small angle neutron (SANS) and X-ray (SAXS) scattering. They offer the possibility to analyze particles without disturbing their natural environment. In each of these techniques radiation is elastically scattered by a sample and the resulting scattering pattern is analyzed to provide information about the size, shape and orientation of some component of the sample. Accordingly, a large number of methods and experimental patterns have been developed to ease the investigation of condensed matter by use of these techniques. Some of them are the discussed in this paper.

  15. Resonant X-ray emission with a standing wave excitation

    PubMed Central

    Ruotsalainen, Kari O.; Honkanen, Ari-Pekka; Collins, Stephen P.; Monaco, Giulio; Moretti Sala, Marco; Krisch, Michael; Hämäläinen, Keijo; Hakala, Mikko; Huotari, Simo

    2016-01-01

    The Borrmann effect is the anomalous transmission of x-rays in perfect crystals under diffraction conditions. It arises from the interference of the incident and diffracted waves, which creates a standing wave with nodes at strongly absorbing atoms. Dipolar absorption of x-rays is thus diminished, which makes the crystal nearly transparent for certain x-ray wave vectors. Indeed, a relative enhancement of electric quadrupole absorption via the Borrmann effect has been demonstrated recently. Here we show that the Borrmann effect has a significantly larger impact on resonant x-ray emission than is observable in x-ray absorption. Emission from a dipole forbidden intermediate state may even dominate the corresponding x-ray spectra. Our work extends the domain of x-ray standing wave methods to resonant x-ray emission spectroscopy and provides means for novel spectroscopic experiments in d- and f-electron systems. PMID:26935531

  16. Resonant X-ray emission with a standing wave excitation.

    PubMed

    Ruotsalainen, Kari O; Honkanen, Ari-Pekka; Collins, Stephen P; Monaco, Giulio; Moretti Sala, Marco; Krisch, Michael; Hämäläinen, Keijo; Hakala, Mikko; Huotari, Simo

    2016-01-01

    The Borrmann effect is the anomalous transmission of x-rays in perfect crystals under diffraction conditions. It arises from the interference of the incident and diffracted waves, which creates a standing wave with nodes at strongly absorbing atoms. Dipolar absorption of x-rays is thus diminished, which makes the crystal nearly transparent for certain x-ray wave vectors. Indeed, a relative enhancement of electric quadrupole absorption via the Borrmann effect has been demonstrated recently. Here we show that the Borrmann effect has a significantly larger impact on resonant x-ray emission than is observable in x-ray absorption. Emission from a dipole forbidden intermediate state may even dominate the corresponding x-ray spectra. Our work extends the domain of x-ray standing wave methods to resonant x-ray emission spectroscopy and provides means for novel spectroscopic experiments in d- and f-electron systems.

  17. X-ray binaries

    NASA Technical Reports Server (NTRS)

    1976-01-01

    Satellite X-ray experiments and ground-based programs aimed at observation of X-ray binaries are discussed. Experiments aboard OAO-3, OSO-8, Ariel 5, Uhuru, and Skylab are included along with rocket and ground-based observations. Major topics covered are: Her X-1, Cyg X-3, Cen X-3, Cyg X-1, the transient source A0620-00, other possible X-ray binaries, and plans and prospects for future observational programs.

  18. RXTE Observations of Anomalous X-ray Pulsar 1E 1547.0-5408 During and After its 2008 and 2009 Outbursts

    NASA Technical Reports Server (NTRS)

    Dib, Rim; Kaspi, Victoria M.; Scholz, Paul; Gavriil, Fotis P.

    2012-01-01

    We present the results of Rossi X-ray Timing Explorer (RXTE) and Swift monitoring observations of the magnetar 1E 1547.0-5408 following the pulsar's radiative outbursts in 2008 October and 2009 January. We report on a study of the evolution of the timing properties and the pulsed flux from 2008 October 4 through 2009 December 26. In our timing study, a phase-coherent analysis shows that for the first 29 days following the 2008 outburst, there was a very fast increase in the magnitude of the rotational frequency derivative upsilon-dot, such that upsilon-dot-dot was a factor of 60 larger than that reported in data from 2007. This upsilon-dot magnitude increase occurred in concert with the decay of the pulsed flux following the start of the 2008 event. Following the 2009 outburst, for the first 23 days, upsilon-dot-dot was consistent with zero, and upsilon-dot had returned to close to its 2007 value. In contrast to the 2008 event, the 2009 outburst showed a major increase in persistent flux, relatively little change in the pulsed flux, and sudden significant spectral hardening approx 15 days after the outburst. We show that, excluding the month following each of the outbursts, and because of the noise and the sparsity in the data, multiple plausible timing solutions fit the pulsar's frequency behavior. We note similarities in the behavior of 1E 1547.0-5408 following the 2008 outburst to that seen in the AXP 1E 1048.1-5937 following its 2001-2002 outburst and discuss this in terms of the magnetar model.

  19. X-ray crystallographic studies of metalloproteins.

    PubMed

    Volbeda, Anne

    2014-01-01

    Many proteins require metals for their physiological function. In combination with spectroscopic characterizations, X-ray crystallography is a very powerful method to correlate the function of protein-bound metal sites with their structure. Due to their special X-ray scattering properties, specific metals may be located in metalloprotein structures and eventually used for phasing the diffracted X-rays by the method of Multi-wavelength Anomalous Dispersion (MAD). How this is done is the principle subject of this chapter. Attention is also given to the crystallographic characterization of different oxidation states of redox active metals and to the complication of structural changes that may be induced by X-ray irradiation of protein crystals.

  20. X-ray beamsplitter

    DOEpatents

    Ceglio, N.M.; Stearns, D.G.; Hawryluk, A.M.; Barbee, T.W. Jr.

    1987-08-07

    An x-ray beamsplitter which splits an x-ray beam into two coherent parts by reflecting and transmitting some fraction of an incident beam has applications for x-ray interferometry, x-ray holography, x-ray beam manipulation, and x-ray laser cavity output couplers. The beamsplitter is formed of a wavelength selective multilayer thin film supported by a very thin x-ray transparent membrane. The beamsplitter resonantly transmits and reflects x-rays through thin film interference effects. A thin film is formed of 5--50 pairs of alternate Mo/Si layers with a period of 20--250 A. The support membrane is 10--200 nm of silicon nitride or boron nitride. The multilayer/support membrane structure is formed across a window in a substrate by first forming the structure on a solid substrate and then forming a window in the substrate to leave a free-standing structure over the window. 6 figs.

  1. X-ray beamsplitter

    DOEpatents

    Ceglio, Natale M.; Stearns, Daniel S.; Hawryluk, Andrew M.; Barbee, Jr., Troy W.

    1989-01-01

    An x-ray beamsplitter which splits an x-ray beam into two coherent parts by reflecting and transmitting some fraction of an incident beam has applications for x-ray interferometry, x-ray holography, x-ray beam manipulation, and x-ray laser cavity output couplers. The beamsplitter is formed of a wavelength selective multilayer thin film supported by a very thin x-ray transparent membrane. The beamsplitter resonantly transmits and reflects x-rays through thin film interference effects. A thin film is formed of 5-50 pairs of alternate Mo/Si layers with a period of 20-250 A. The support membrane is 10-200 nm of silicon nitride or boron nitride. The multilayer/support membrane structure is formed across a window in a substrate by first forming the structure on a solid substrate and then forming a window in the substrate to leave a free-standing structure over the window.

  2. X-ray Spectrometry.

    ERIC Educational Resources Information Center

    Markowicz, Andrzej A.; Van Grieken, Rene E.

    1984-01-01

    Provided is a selective literature survey of X-ray spectrometry from late 1981 to late 1983. Literature examined focuses on: excitation (photon and electron excitation and particle-induced X-ray emission; detection (wavelength-dispersive and energy-dispersive spectrometry); instrumentation and techniques; and on such quantitative analytical…

  3. X-ray

    MedlinePlus

    ... is very low. Most experts feel that the benefits of appropriate x-ray imaging greatly outweigh any risks. Young children and babies in the womb are more sensitive to the risks of x-rays. Tell your health care provider if you think you might be pregnant.

  4. X-ray generator

    DOEpatents

    Dawson, John M.

    1976-01-01

    Apparatus and method for producing coherent secondary x-rays that are controlled as to direction by illuminating a mixture of high z and low z gases with an intense burst of primary x-rays. The primary x-rays are produced with a laser activated plasma, and these x-rays strip off the electrons of the high z atoms in the lasing medium, while the low z atoms retain their electrons. The neutral atoms transfer electrons to highly excited states of the highly striped high z ions giving an inverted population which produces the desired coherent x-rays. In one embodiment, a laser, light beam provides a laser spark that produces the intense burst of coherent x-rays that illuminates the mixture of high z and low z gases, whereby the high z atoms are stripped while the low z ones are not, giving the desired mixture of highly ionized and neutral atoms. To this end, the laser spark is produced by injecting a laser light beam, or a plurality of beams, into a first gas in a cylindrical container having an adjacent second gas layer co-axial therewith, the laser producing a plasma and the intense primary x-rays in the first gas, and the second gas containing the high and low atomic number elements for receiving the primary x-rays, whereupon the secondary x-rays are produced therein by stripping desired ions in a neutral gas and transfer of electrons to highly excited states of the stripped ions from the unionized atoms. Means for magnetically confining and stabilizing the plasma are disclosed for controlling the direction of the x-rays.

  5. Dynamic small angle x-ray scattering study of stressed Kevlar 49 epoxy composites

    SciTech Connect

    Lee, J.S.; Fellers, J.F.; Tang, M.Y.; Lin, J.S.

    1985-01-01

    The highly crosslinked epoxy resins gave rise to isotropic scattering patterns and applying tensile stresses resulted in very little scattering changes. The dynamic scattering studies on the epoxy resins indicate the failure process as a catastrophic dynamic process with fractures initiating from surface or internal flaws. The crack propagates across the whole sample in a very short time to complete failure. The Kevlar fibers are microporous giving rise to equatorially elongated anisotropic scattering patterns. These microvoids can be partially filled by liquid epoxy. Based on comparisons of the volume fraction of the microvoids obtained by SAXS absolute intensity measurements and by the density measurements, two sizes of microvoids are present in the Kevlar 49 fibers - one in the range of 10 to 20 nm and the other much larger. Applying tensile stresses results in an increase in the scattering intensities and in the volume fraction of smaller microvoids. The average radius of gyration of these microvoids remained constant, and hence the number of these smaller microvoids must have increased in order to account for increased scattering intensities. It is thus concluded that the failure of Kevlar 49 fibers is accompanied by the increase in number of smaller microvoids and the enlargement of the larger microvoids along the fiber axis direction. The reinforced epoxy composites of low volume fraction unidirectional Kevlar 49 fiber gave rise to anisotropic scattering patterns perpendicular to the fiber axis direction, and it is believed this scattering is due to voids within the fibers and voids entrapped along the fiber matrix interface during processing. The dynamic scattering studies on the composites indicate the failure as a catastrophic dynamic process, fracture initiating in the epoxy matrix and the fibers not being able to carry the load, thus failing catastrophically as well. The failure is thus instantaneous once incipient failure occurs.

  6. In situ measurements of soot formation in simple flames using small angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Gardner, C.; Greaves, G. N.; Hargrave, G. K.; Jarvis, S.; Wildman, P.; Meneau, F.; Bras, W.; Thomas, G.

    2005-08-01

    Direct SAXS measurements of soot formation from ethylene have been made using laminar pre-mixed flames for the first time. The slot burner was configured to maximise the signal from particulates. The geometry also enabled the thermal background from the surrounding hot gasses to be accurately removed. With cold flame speeds of 40 cm s-1 we have been able to identify particle sizes and densities from moderately sooty to rich flame conditions. By adjusting the height of the burner in the beam, the development of particles as a function of position above the flame tip and therefore as a function of time from ignition have been obtained. These reveal evidence for bimodal particle nucleation and growth at different stages in the continuous combustion of ethylene.

  7. Small-angle x-ray scattering studies of base-catalyzed aerogels

    NASA Astrophysics Data System (ADS)

    Pajak, Lucjan

    1997-02-01

    Silica aerogels obtained by the supercritical drying of wet gels prepared by hydrolysis and condensation of alcoholic mixture of Si(OC2H5)4 (tetraethoxysila- ne- TEOS) and water were studied using SAXS, BET and density measurement. Main reason for the interest in the research of the materials prepared from the alcoxides by sol-gel methods is that the liquid state enables manipulation on a molecular level. This permits structural modifications and optimizing the conditions for the further conversion of the gel into glasses and ceramics.

  8. SFF analysis of the small angle scattering data for investigation of a vesicle systems structure

    NASA Astrophysics Data System (ADS)

    Zemlyanaya, E. V.; Kiselev, M. A.; Zhabitskaya, E. I.; Gruzinov, A. Yu.; Aksenov, V. L.; Ipatova, O. M.; Druzhilovskaya, O. S.

    2016-06-01

    Experimental data on the small angle synchrotron X-ray scattering (SAXS) are analyzed on a basis of Separated form factors method (SFF) for a study of the drug delivery Phospholipid Transport Nano System (PTNS). Basic parameters of polydispersed population of PTNS nanoparticles (average radius of PTNS-particles, polydispersity of radius, thickness of membrane) have been determined. The results are discussed in comparison with the SFF results for the “classical” vesicular system of dimyristoylphosphocholine (DMPC).

  9. Small-angle scatter tomography with a photon-counting detector array

    NASA Astrophysics Data System (ADS)

    Pang, Shuo; Zhu, Zheyuan; Wang, Ge; Cong, Wenxiang

    2016-05-01

    Small-angle x-ray scatter imaging has a high intrinsic contrast in cancer research and other applications, and provides information on molecular composition and micro-structure of the tissue. In general, the implementations of small-angle coherent scatter imaging can be divided into two main categories: direct tomography and angular dispersive computerized tomography. Based on the recent development of energy-discriminative photon-counting detector array, here we propose a computerized tomography setup based on energy-dispersive measurement with a photon-counting detector array. To show merits of the energy-dispersive approach, we have performed numerical tests with a phantom containing various tissue types, in comparison with the existing imaging approaches. The results show that with an energy resolution of ~6 keV, the energy dispersive tomography system with a broadband tabletop x-ray would outperform the angular dispersive system, which makes the x-ray small-angle scatter tomography promising for high-specificity tissue imaging.

  10. X-ray crystallography

    NASA Technical Reports Server (NTRS)

    2001-01-01

    X-rays diffracted from a well-ordered protein crystal create sharp patterns of scattered light on film. A computer can use these patterns to generate a model of a protein molecule. To analyze the selected crystal, an X-ray crystallographer shines X-rays through the crystal. Unlike a single dental X-ray, which produces a shadow image of a tooth, these X-rays have to be taken many times from different angles to produce a pattern from the scattered light, a map of the intensity of the X-rays after they diffract through the crystal. The X-rays bounce off the electron clouds that form the outer structure of each atom. A flawed crystal will yield a blurry pattern; a well-ordered protein crystal yields a series of sharp diffraction patterns. From these patterns, researchers build an electron density map. With powerful computers and a lot of calculations, scientists can use the electron density patterns to determine the structure of the protein and make a computer-generated model of the structure. The models let researchers improve their understanding of how the protein functions. They also allow scientists to look for receptor sites and active areas that control a protein's function and role in the progress of diseases. From there, pharmaceutical researchers can design molecules that fit the active site, much like a key and lock, so that the protein is locked without affecting the rest of the body. This is called structure-based drug design.

  11. Laboratory x ray lasers

    NASA Astrophysics Data System (ADS)

    Matthews, D. L.

    1989-08-01

    One of the most innovative spinoffs of ICF technology and physics was the development of the x ray wavelength laser. The first incontrovertible demonstration of this type of laser came from LLNL in 1984 using the Novette laser to pump a selenium foil target. The power and energy of Novette were then needed to produce a column of plasma of sufficient length to achieve a sufficient gainlength product (approximately 5.5, this corresponds to an amplification of approximately 250X) that could unquestionably illustrate the lasing effect. LLNL ICF expertise was also required to develop time-resolved spectrometers used to view the lasing transitions at approximately 20 nm, a region of the XUV spectrum normally dominated by high backgrounds. The design of the x ray laser amplifier, which required maintaining nonequilibrium level populations in a tailored plasma having the proper conditions for gain and x ray laser beam propagation, was accomplished with modified versions of ICF kinetics and hydrodynamics codes. Since the first demonstration, progress in the development of the x ray laser was rapid. New achievements include production of megawatt power levels at 20 nm, amplified spontaneous emission levels approaching saturation intensity GL of approximately 17 at 20 nm, efficiency (x ray laser energy/pump energy) approximately 10(exp 6), the demonstration of double and triple pass amplification (hinting at the possibility of producing x ray wavelength resonators), the focusing of x ray lasers to pump other types of lasers and the first demonstration of an x ray hologram produced by an x ray laser. The generation of amplification at ever shorter wavelength is possible using various types of inversion schemes. We depict below this progress benchmarked against production of gain in the water window (2.2 to 4.4 nm,), where applications to biological imaging may be facilitated.

  12. Lumbosacral spine x-ray

    MedlinePlus

    X-ray - lumbosacral spine; X-ray - lower spine ... The test is done in a hospital x-ray department or your health care provider's office by an x-ray technician. You will be asked to lie on the x-ray table ...

  13. X-ray laser

    DOEpatents

    Nilsen, Joseph

    1991-01-01

    An X-ray laser (10) that lases between the K edges of carbon and oxygen, i.e. between 44 and 23 Angstroms, is provided. The laser comprises a silicon (12) and dysprosium (14) foil combination (16) that is driven by two beams (18, 20) of intense line focused (22, 24) optical laser radiation. Ground state nickel-like dysprosium ions (34) are resonantly photo-pumped to their upper X-ray laser state by line emission from hydrogen-like silicon ions (32). The novel X-ray laser should prove especially useful for the microscopy of biological specimens.

  14. Hard X-Ray Emission from X-Ray Bursters

    NASA Technical Reports Server (NTRS)

    Halpern, Jules P.; Kaaret, Philip

    1999-01-01

    The scientific goal of this project is to study the hard x-ray emission from x-ray bursters. One target of opportunity observation was made for this investigation during 1997. We obtained 38ks of data on the source 4UI705-44. The project is closely related to "Monitoring x-ray emission from x-ray bursters", and "Long-Term Hard X-Ray Monitoring of X-Ray Bursters."

  15. In situ x-ray scattering study on the evolution of Ge island morphology and relaxation for low growth rate: Advanced transition to superdomes

    SciTech Connect

    Richard, M.-I.; Holy, V.

    2009-07-15

    The kinetics of the growth of Ge superdomes and their facets on Si(001) surfaces are analyzed as a function of deposited Ge thickness for different growth temperatures and at a low growth rate by in situ grazing-incidence small-angle x-ray scattering in combination with in situ grazing-incidence x-ray diffraction. At a low growth rate, intermixing is found to be enhanced and superdomes are formed already at lower coverages than previously reported. In addition, we observe that at the dome-to-superdome transition, a large amount of material is transferred into dislocated islands, either by dome coalescence or by anomalous coarsening. Once dislocated islands are formed, island coalescence is a rare event and introduction of dislocations is preferred. The superdome growth is thus stabilized by the insertion of dislocations during growth.

  16. X-ray (image)

    MedlinePlus

    ... a form of electromagnetic radiation, just like visible light. Structures that are dense (such as bone) will block most of the x-ray particles, and will appear white. Metal and contrast media (special dye used to highlight ...

  17. Pelvis x-ray

    MedlinePlus

    X-ray - pelvis ... Tumors Degenerative conditions of bones in the hips, pelvis, and upper legs ... hip joint Tumors of the bones of the pelvis Sacroiliitis (inflammation of the area where the sacrum ...

  18. Medical X-Rays

    MedlinePlus

    ... Diagnostic X-Ray Equipment Compliance Program Guidance Manual CP 7386.003 Field Compliance Testing of Diagnostic (Medical) ... and Exporting Electronic Products Compliance Program Guidance Manual CP 7386.003 Field Compliance Testing of Diagnostic (Medical) ...

  19. X-Ray Diffraction.

    ERIC Educational Resources Information Center

    Smith, D. K.; Smith, K. L.

    1980-01-01

    Reviews applications in research and analytical characterization of compounds and materials in the field of X-ray diffraction, emphasizing new developments in applications and instrumentation in both single crystal and powder diffraction. Cites 414 references. (CS)

  20. X-ray - skeleton

    MedlinePlus

    ... is used to look for: Fractures or broken bone Cancer that has spread to other areas of the ... 2014:chap 8. Read More Bone tumor Broken bone Cancer Metastasis Osteomyelitis X-ray Update Date 5/9/ ...

  1. Cosmic x ray physics

    NASA Technical Reports Server (NTRS)

    Mccammon, Dan; Cox, D. P.; Kraushaar, W. L.; Sanders, W. T.

    1992-01-01

    This final report covers the period 1 January 1985 - 31 March 1992. It is divided into the following sections: the soft x-ray background; proportional counter and filter calibrations; sounding rocket flight preparations; new sounding rocket payload: x-ray calorimeter; and theoretical studies. Staff, publications, conference proceedings, invited talks, contributed talks, colloquia and seminars, public service lectures, and Ph. D. theses are listed.

  2. Scanning X-Ray Nanodiffraction on Dictyostelium discoideum

    PubMed Central

    Priebe, Marius; Bernhardt, Marten; Blum, Christoph; Tarantola, Marco; Bodenschatz, Eberhard; Salditt, Tim

    2014-01-01

    We have performed scanning x-ray nanobeam diffraction experiments on single cells of the amoeba Dictyostelium discoideum. Cells have been investigated in 1), freeze-dried, 2), frozen-hydrated (vitrified), and 3), initially alive states. The spatially resolved small-angle x-ray scattering signal shows characteristic streaklike patterns in reciprocal space, which we attribute to fiber bundles of the actomyosin network. From the intensity distributions, an anisotropy parameter can be derived that indicates pronounced local variations within the cell. In addition to nanobeam small-angle x-ray scattering, we have evaluated the x-ray differential phase contrast in view of the projected electron density. Different experimental aspects of the x-ray experiment, sample preparation, and data analysis are discussed. Finally, the x-ray results are correlated with optical microscopy (differential phase contrast and confocal microscopy of mutant strains with fluorescently labeled actin and myosin II), which have been carried out in live and fixed states, including optical microscopy under cryogenic conditions. PMID:25468345

  3. Cationic vacancies and anomalous spectral-weight transfer in Ti1-xTaxO2 thin films studied via polarization-dependent near-edge x-ray absorption fine structure spectroscopy

    NASA Astrophysics Data System (ADS)

    Qi, Dong-Chen; Barman, Arkajit Roy; Debbichi, Lamjed; Dhar, S.; Santoso, Iman; Asmara, Teguh Citra; Omer, Humair; Yang, Kesong; Krüger, Peter; Wee, Andrew T. S.; Venkatesan, T.; Rusydi, Andrivo

    2013-06-01

    We report the electronic structures of Ta-doped anatase TiO2 thin films grown by pulsed laser deposition (PLD) with varying magnetization using a combination of first-principles calculations and near-edge x-ray absorption fine structure (NEXAFS) spectroscopy. The roles of Ta doping and Ti vacancies are clarified, and the observed room-temperature ferromagnetism is attributed to the localized magnetic moments at Ti vacancy sites ferromagnetically ordered by electron charge carriers. O K-edge spectra exhibit significant polarization dependence which is discussed and supported by first-principles calculations in relation to both the crystal symmetry and the formation of defects. In particular, anomalous spectral-weight transfer across the entire O K edge for the ferromagnetic thin film is associated exclusively with the occurrence of Ti vacancies and strong correlation effects, which result in the enhancement of the direct interaction between oxygen sites and of the anisotropy of the eg-pσ hybridizations in the out-of-plane component. Our results show that O K-edge NEXAFS spectra can provide reliable experimental probes capable of revealing cationic defects that are intimately related to the ferromagnetism in transition metal oxides.

  4. Fractal Approach in Petrology: Combining Ultra-Small Angle (USANA) and Small Angle Neutron Scattering (SANS)

    SciTech Connect

    LoCelso, F.; Triolo, F.; Triolo, A.; Lin, J.S.; Lucido, G.; Triolo, R.

    1999-10-14

    Ultra small angle neutron scattering instruments have recently covered the gap between the size resolution available with conventional intermediate angle neutron scattering and small angle neutron scattering instruments on one side and optical microscopy on the other side. Rocks showing fractal behavior in over two decades of momentum transfer and seven orders of magnitude of intensity are examined and fractal parameters are extracted from the combined USANS and SANS curves.

  5. Anomalous lattice expansion in yttria stabilized zirconia under simultaneous applied electric and thermal fields: A time-resolved in situ energy dispersive x-ray diffractometry study with an ultrahigh energy synchrotron probe

    SciTech Connect

    Akdogan, E. K.; Savkl Latin-Small-Letter-Dotless-I y Latin-Small-Letter-Dotless-I ld Latin-Small-Letter-Dotless-I z, I.; Bicer, H.; Paxton, W.; Toksoy, F.; Tsakalakos, T.; Zhong, Z.

    2013-06-21

    Nonisothermal densification in 8% yttria doped zirconia (8YSZ) particulate matter of 250 nm median particle size was studied under 215 V/cm dc electric field and 9 Degree-Sign C/min heating rate, using time-resolved in-situ high temperature energy dispersive x-ray diffractometry with a polychromatic 200 keV synchrotron probe. Densification occurred in the 876-905 Degree-Sign C range, which resulted in 97% of the theoretical density. No local melting at particle-particle contacts was observed in scanning electron micrographs, implying densification was due to solid state mass transport processes. The maximum current draw at 905 Degree-Sign C was 3 A, corresponding to instantaneous absorbed power density of 570 W/cm{sup 3}. Densification of 8YSZ was accompanied by anomalous elastic volume expansions of the unit cell by 0.45% and 2.80% at 847 Degree-Sign C and 905 Degree-Sign C, respectively. The anomalous expansion at 905 Degree-Sign C at which maximum densification was observed is characterized by three stages: (I) linear stage, (II) anomalous stage, and (III) anelastic recovery stage. The densification in stage I (184 s) and II (15 s) was completed in 199 s, while anelastic relaxation in stage III lasted 130 s. The residual strains ({epsilon}) at room temperature, as computed from tetragonal (112) and (211) reflections, are {epsilon}{sub (112)} = 0.05% and {epsilon}{sub (211)} = 0.13%, respectively. Time dependence of (211) and (112) peak widths ({beta}) show a decrease with both exhibiting a singularity at 905 Degree-Sign C. An anisotropy in (112) and (211) peak widths of {l_brace} {beta}{sub (112)}/{beta}{sub (211)}{r_brace} = (3:1) magnitude was observed. No phase transformation occurred at 905 Degree-Sign C as verified from diffraction spectra on both sides of the singularity, i.e., the unit cell symmetry remains tetragonal. We attribute the reduction in densification temperature and time to ultrafast ambipolar diffusion of species arising from the

  6. Small-angle scattering model for multilamellar vesicles

    SciTech Connect

    Frielinghaus, Henrich

    2007-11-15

    A small-angle neutron-x-ray-light-scattering model for multilamellar vesicles is developed on the basis of a simple geometry. N spherical shells with radii of an arithmetic series are allowed for displacements {delta}R which are limited by {delta}R

  7. X-ray beam finder

    DOEpatents

    Gilbert, H.W.

    1983-06-16

    An X-ray beam finder for locating a focal spot of an X-ray tube includes a mass of X-ray opaque material having first and second axially-aligned, parallel-opposed faces connected by a plurality of substantially identical parallel holes perpendicular to the faces and a film holder for holding X-ray sensitive film tightly against one face while the other face is placed in contact with the window of an X-ray head.

  8. Serial femtosecond X-ray diffraction of enveloped virus microcrystals

    DOE PAGESBeta

    Lawrence, Robert M.; Conrad, Chelsie E.; Zatsepin, Nadia A.; Grant, Thomas D.; Liu, Haiguang; James, Daniel; Nelson, Garrett; Subramanian, Ganesh; Aquila, Andrew; Hunter, Mark S.; et al

    2015-08-20

    Serial femtosecond crystallography (SFX) using X-ray free-electron lasers has produced high-resolution, room temperature, time-resolved protein structures. We report preliminary SFX of Sindbis virus, an enveloped icosahedral RNA virus with ~700 Å diameter. Microcrystals delivered in viscous agarose medium diffracted to ~40 Å resolution. Small-angle diffuse X-ray scattering overlaid Bragg peaks and analysis suggests this results from molecular transforms of individual particles. Viral proteins undergo structural changes during entry and infection, which could, in principle, be studied with SFX. This is a pertinent step toward determining room temperature structures from virus microcrystals that may enable time-resolved studies of enveloped viruses.

  9. Synchrotron x-ray sources and new opportunities in the soil and environmental sciences

    SciTech Connect

    Schulze, D. ); Anderson, S. ); Mattigod, S. )

    1990-07-01

    This report contains the following papers: characteristics of the advanced photon source and comparison with existing synchrotron facilities; x-ray absorption spectroscopy: EXAFS and XANES -- A versatile tool to study the atomic and electronic structure of materials; applications of x-ray spectroscopy and anomalous scattering experiments in the soil and environmental sciences; X-ray fluorescence microprobe and microtomography.

  10. Small angle scattering methods to study porous materials under high uniaxial strain

    SciTech Connect

    Le Floch, Sylvie Balima, Félix; Pischedda, Vittoria; Legrand, Franck; San-Miguel, Alfonso

    2015-02-15

    We developed a high pressure cell for the in situ study of the porosity of solids under high uniaxial strain using neutron small angle scattering. The cell comprises a hydraulically actioned piston and a main body equipped with two single-crystal sapphire windows allowing for the neutron scattering of the sample. The sample cavity is designed to allow for a large volume variation as expected when compressing highly porous materials. We also implemented a loading protocol to adapt an existing diamond anvil cell for the study of porous materials by X-ray small angle scattering under high pressure. The two techniques are complementary as the radiation beam and the applied pressure are in one case perpendicular to each other (neutron cell) and in the other case parallel (X-ray cell). We will illustrate the use of these two techniques in the study of lamellar porous systems up to a maximum pressure of 0.1 GPa and 0.3 GPa for the neutron and X-ray cells, respectively. These devices allow obtaining information on the evolution of porosity with pressure in the pore dimension subdomain defined by the wave-numbers explored in the scattering process. The evolution with the applied load of such parameters as the fractal dimension of the pore-matrix interface or the apparent specific surface in expanded graphite and in expanded vermiculite is used to illustrate the use of the high pressure cells.

  11. Small angle scattering methods to study porous materials under high uniaxial strain.

    PubMed

    Le Floch, Sylvie; Balima, Félix; Pischedda, Vittoria; Legrand, Franck; San-Miguel, Alfonso

    2015-02-01

    We developed a high pressure cell for the in situ study of the porosity of solids under high uniaxial strain using neutron small angle scattering. The cell comprises a hydraulically actioned piston and a main body equipped with two single-crystal sapphire windows allowing for the neutron scattering of the sample. The sample cavity is designed to allow for a large volume variation as expected when compressing highly porous materials. We also implemented a loading protocol to adapt an existing diamond anvil cell for the study of porous materials by X-ray small angle scattering under high pressure. The two techniques are complementary as the radiation beam and the applied pressure are in one case perpendicular to each other (neutron cell) and in the other case parallel (X-ray cell). We will illustrate the use of these two techniques in the study of lamellar porous systems up to a maximum pressure of 0.1 GPa and 0.3 GPa for the neutron and X-ray cells, respectively. These devices allow obtaining information on the evolution of porosity with pressure in the pore dimension subdomain defined by the wave-numbers explored in the scattering process. The evolution with the applied load of such parameters as the fractal dimension of the pore-matrix interface or the apparent specific surface in expanded graphite and in expanded vermiculite is used to illustrate the use of the high pressure cells.

  12. 6 GeV synchrotron x-ray source: Conceptual design report. Supplement B - conceptual design of proposed beam lines for the 6 GeV light source

    SciTech Connect

    1996-03-01

    In this document, preliminary conceptual designs are presented for ten sample beamlines for the 6 GeV Light Source. These beamlines will accommodate investigations in solid-state physics, materials science, materials technology, chemical technology, and biological and medical sciences. In future, the designs will be altered to include new developments in x-ray optics and hardware technologies. The research areas addressed by the samples beamlines are as follows: Topography and Radiography/Tomography (section 2); Inelastic Scattering with Ultrahigh Energy Resolution (Section 3); Surface and Bulk Studies Using High Momentum Resolution (Section 4); Inelastic Scattering from Charge and Spin (Section 5); Advanced X-Ray Photoelectron Spectroscopy Studies (Section 6); Small Angle X-Ray Scattering Studies (Section 7); General Purpose Scattering for Materials Studies (Section 8); Multiple-Energy Anomalous-Dispersion Studies of Proteins (Section 9); Protein Crystallography (Section 10); Time- and Space-resolved X-Ray Spectroscopy (Section 11); Medical Diagnostic Facility (Section 12); and Transuranium Research Facility (Section 13). The computer systems to be used on the beamlines are also discussed in Section 14 of this document.

  13. Signal decomposition for X-ray dark-field imaging.

    PubMed

    Kaeppler, Sebastian; Bayer, Florian; Weber, Thomas; Maier, Andreas; Anton, Gisela; Hornegger, Joachim; Beckmann, Matthias; Fasching, Peter A; Hartmann, Arndt; Heindl, Felix; Michel, Thilo; Oezguel, Gueluemser; Pelzer, Georg; Rauh, Claudia; Rieger, Jens; Schulz-Wendtland, Ruediger; Uder, Michael; Wachter, David; Wenkel, Evelyn; Riess, Christian

    2014-01-01

    Grating-based X-ray dark-field imaging is a new imaging modality. It allows the visualization of structures at micrometer scale due to small-angle scattering of the X-ray beam. However, reading darkfield images is challenging as absorption and edge-diffraction effects also contribute to the dark-field signal, without adding diagnostic value. In this paper, we present a novel--and to our knowledge the first--algorithm for isolating small-angle scattering in dark-field images, which greatly improves their interpretability. To this end, our algorithm utilizes the information available from the absorption and differential phase images to identify clinically irrelevant contributions to the dark-field image. Experimental results on phantom and ex-vivo breast data promise a greatly enhanced diagnostic value of dark-field images.

  14. Impedance Scaling for Small Angle Transitions

    SciTech Connect

    Stupakov, G.; Bane, Karl; Zagorodnov, I.; /DESY

    2010-10-27

    Based on the parabolic equation approach to Maxwell's equations we have derived scaling properties of the high frequency impedance/short bunch wakefields of structures. For the special case of small angle transitions we have shown the scaling properties are valid for all frequencies. Using these scaling properties one can greatly reduce the calculation time of the wakefield/impedance of long, small angle, beam pipe transitions, like one often finds in insertion regions of storage rings. We have tested the scaling with wakefield simulations of 2D and 3D models of such transitions, and found that the scaling works well. In modern ring-based light sources one often finds insertion devices having extremely small vertical apertures (on the order of millimeters) to allow for maximal undulator fields reaching the beam. Such insertion devices require that there be beam pipe transitions from these small apertures to the larger cross-sections (normally on the order of centimeters) found in the rest of the ring. The fact that there may be many such transitions, and that these transitions introduce beam pipe discontinuities very close to the beam path, means that their impedance will be large and, in fact, may dominate the impedance budget of the entire ring. To reduce their impact on impedance, the transitions are normally tapered gradually over a long distance. The accurate calculation of the impedance or wakefield of these long transitions, which are typically 3D objects (i.e. they do not have cylindrical symmetry), can be quite a challenging numerical task. In this report we present a method of obtaining the impedance of a long, small angle transition from the calculation of a scaled, shorter one. Normally, the actual calculation is obtained from a time domain simulation of the wakefield in the structure, where the impedance can be obtained by performing a Fourier transform. We shall see that the scaled calculation reduces the computer time and memory requirements

  15. Soller collimators for small angle neutron scattering

    SciTech Connect

    Crawford, R.K.; Epperson, J.E.; Thiyagarajan, P.

    1988-09-30

    Small angle diffractometers at pulsed sources need to have fairly short flight paths if they are to make use of the long-wavelength portion of the spectrum without encountering problems from frame overlap or sacrificing intensity with band-limiting or pulse-removing choppers. With such short flight paths, achieving the necessary angular collimation in the incident beam while utilizing the full source size (/approximately/10 cm diameter) and a reasonable sample size (/approximately/1 cm diameter) requires the use of converging multiple-aperture collimation. If the collimation channels are all focused to the same point on the detector then the large sample size will not affect Q/sub min/ or the Q-resolution, even if the sample-to-detector distance is short. The Small Angle Diffractometer (SAD) at IPNS uses crossed converging soller collimators to provide focusing multiple-aperture collimation having /approximately/400 converging beam channels with essentially no ''dead'' space between them. This entire collimator system occupies a distance of only /approximately/60 cm along the incident flight path, while providing angular collimation of 0.003 radians FWHM. The dimensions for the SAD upstream collimator are L/sub c/ = 32.8 cm, d/sub 1/ = 0.974 mm, d/sub 2/ = 0.851 mm, while for the SAD downstream collimator L/sub c/ = 25.0 cm, d/sub 1/ - 0.844 mm, d/sub 2/ = 0.750 mm. Each of these collimators has 20 blades defining 21 horizontal or vertical channels. 4 refs., 6 figs.

  16. Hierarchical O(N) computation of small-angle scattering profiles and their associated derivatives

    PubMed Central

    Berlin, Konstantin; Gumerov, Nail A.; Fushman, David; Duraiswami, Ramani

    2014-01-01

    The need for fast approximate algorithms for Debye summation arises in computations performed in crystallography, small/wide-angle X-ray scattering and small-angle neutron scattering. When integrated into structure refinement protocols these algorithms can provide significant speed up over direct all-atom-to-all-atom computation. However, these protocols often employ an iterative gradient-based optimization procedure, which then requires derivatives of the profile with respect to atomic coordinates. This article presents an accurate, O(N) cost algorithm for the computation of scattering profile derivatives. The results reported here show orders of magnitude improvement in computational efficiency, while maintaining the prescribed accuracy. This opens the possibility to efficiently integrate small-angle scattering data into the structure determination and refinement of macromolecular systems. PMID:24701198

  17. Small-angle neutron scattering studies from solutions of bovine nasal cartilage proteoglycan

    SciTech Connect

    Patel, A.; Stivala, S.S.; Damle, S.P.; Gregory, J.D.; Bunick, G.J.; Uberbacher, E.C.

    1985-08-01

    Small-angle neutron scattering, SANS, of the proteoglycan subunit of bovine nasal cartilage in 0.15N LiCl at 25/sup 0/C yielded the radius of gyration, R/sub g/, radius of gyration of the cross-section, R/sub q/, persistence length, a, and the molecular weight, M. The following values were obtained: M = 3.9 x 10/sup 6/, R/sub g/ = 745 A, R/sub q/ = 34.6 A and a = 35.2 A. These values compare favorably with those that were obtained from small angle x-ray scattering, SAXS, of a similar extract. The scattering curve of the proteoglycan subunit in D/sub 2/O showed a characteristic broad peak in the specified angular range similar to that observed from SAXS, thus confirming the polyelectrolyte nature of the proteoglycan. 15 refs., 3 figs., 1 tab. (DT)

  18. X-Ray Diffraction from Live Muscle Fibres

    NASA Astrophysics Data System (ADS)

    Svensson, A.; Bordas, J.; de La Cuesta, F. B.

    The previous chapter shows how small-angle X-ray Diffraction can be used to study the organization of collagen fibres in tissue, proposing this technique as a diagnosis tool. In this chapter, synchrotron small-angle X-ray diffraction (SAXD) by using high-angle and temporal resolution is presented as an essential tool in structural functional studies of skeletal muscle tissues. SAXD studies of muscle fibres involve the combination of mechanical and diffraction methods and provide insights into the molecular mechanisms responsible for the generation of force and motion in active muscle. These studies are made possible because of the highly ordered arrangement of the contractile proteins, myosin and actin, in the sarcomere, the smallest functional repeating unit of the muscle cell. The possibility to collect diffraction diagrams with high angular and temporal resolutions at modern third-generation synchrotron radiation sources together with new data processing algorithms together and two-dimensional photon counting detectors allow structural and functional studies of live muscle tissues. The review covers the basics of X-ray small-angle diffraction, instrumentation and mathematical methods used in data analysis. A general description of each of these points has been presented in Chap.1 and 2. It provides new results on the axial disposition of the myosin heads and their interpretation from analysing the interference fringes that carve the diffraction orders into clusters of peaks.

  19. X-ray lithography masking

    NASA Technical Reports Server (NTRS)

    Smith, Henry I. (Inventor); Lim, Michael (Inventor); Carter, James (Inventor); Schattenburg, Mark (Inventor)

    1998-01-01

    X-ray masking apparatus includes a frame having a supporting rim surrounding an x-ray transparent region, a thin membrane of hard inorganic x-ray transparent material attached at its periphery to the supporting rim covering the x-ray transparent region and a layer of x-ray opaque material on the thin membrane inside the x-ray transparent region arranged in a pattern to selectively transmit x-ray energy entering the x-ray transparent region through the membrane to a predetermined image plane separated from the layer by the thin membrane. A method of making the masking apparatus includes depositing back and front layers of hard inorganic x-ray transparent material on front and back surfaces of a substrate, depositing back and front layers of reinforcing material on the back and front layers, respectively, of the hard inorganic x-ray transparent material, removing the material including at least a portion of the substrate and the back layers of an inside region adjacent to the front layer of hard inorganic x-ray transparent material, removing a portion of the front layer of reinforcing material opposite the inside region to expose the surface of the front layer of hard inorganic x-ray transparent material separated from the inside region by the latter front layer, and depositing a layer of x-ray opaque material on the surface of the latter front layer adjacent to the inside region.

  20. X-ray Spectrometer

    NASA Technical Reports Server (NTRS)

    Porter, F. Scott

    2004-01-01

    The X-ray Spectrometer (XRS) instrument is a revolutionary non-dispersive spectrometer that will form the basis for the Astro-E2 observatory to be launched in 2005. We have recently installed a flight spare X R S microcalorimeter spectrometer at the EBIT-I facility at LLNL replacing the XRS from the earlier Astro-E mission and providing twice the resolution. The X R S microcalorimeter is an x-ray detector that senses the heat deposited by the incident photon. It achieves a high energy resolution by operating at 0.06K and by carefully controlling the heat capacity and thermal conductance. The XRS/EBIT instrument has 32 pixels in a square geometry and achieves an energy resolution of 6 eV at 6 keV, with a bandpass from 0.1 to 12 keV (or more at higher operating temperature). The instrument allows detailed studies of the x-ray line emission of laboratory plasmas. The XRS/EBIT also provides an extensive calibration "library" for the Astro-E2 observatory.