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Sample records for dft theoretical studies

  1. Theoretical investigation of loratadine reactivity in order to understand its degradation properties: DFT and MD study.

    PubMed

    Armaković, Stevan; Armaković, Sanja J; Abramović, Biljana F

    2016-10-01

    Antihistamines are frequently used pharmaceuticals that treat the symptoms of allergic reactions. Loratadine (LOR) is an active component of the second generation of selective antihistaminic pharmaceutical usually known as Claritin. Frequent usage of this type of pharmaceuticals imposes the need for understanding their fundamental reactive properties. In this study we have theoretically investigated reactive properties of LOR using both density functional theory (DFT) calculations and molecular dynamics (MD) simulations. DFT study is used for collecting information related to the molecule stability, structure, frontier molecular orbitals, quantum molecular descriptors, charge distribution, molecular electrostatic potential surfaces, charge polarization, and local reactivity properties according to average local ionization energy surfaces. Based on these results, N24 atom of pyridine ring and oxygen atom O1 were identified with nucleophilic nature. In order to collect the information necessary for the proposition of degradation compounds we also calculated bond dissociation energies (BDE) for hydrogen abstraction and single acyclic bonds as well. According to BDE, the oxidation is likely to occur in the piperidine and cycloheptane rings. MD simulations were used in order to understand the interactions with water through radial distribution functions (RDF). Based on RDFs the most important interactions with solvent are determined for carbon atom C5, chlorine atom Cl15, and oxygen atom O1. Collected results based on DFT calculations and MD simulations provided information important for suggestion of possible degradation compounds. Covalent and noncovalent interactions between LOR and (•)OH have also been investigated. PMID:27640160

  2. FTIR, Raman and NMR spectroscopic and DFT theoretical studies on poly(N-vinylimidazole).

    PubMed

    Talu, Muzaffer; Demiroğlu, Elif Uzluk; Yurdakul, Şenay; Badoğlu, Serdar

    2015-01-01

    In this study where the FTIR, Raman, (1)H NMR and (13)C NMR spectra of poly(N-vinylimidazole) which can be abbreviated as poly(NVIM) are first reported, a comparison of the experimental and theoretical vibrational spectral data of monomer NVIM and water-soluble poly(NVIM) has been given; such a comparison over the vibrational modes and associated spectral data calculated at B3LYP/6-31+G(d) level of theory for NVIM and its stable dimer forms provided significant contributions for getting a reliable interpretation of the observed vibrational spectra of poly(NVIM). The obtained results revealed that the change from NVIM to poly(NVIM) should be characterized by the disappearance of the CH₂CH bonds of the vinyl group and the appearance of the aliphatic CH and CH₂ bonds. Besides this, the thermal properties of poly(NVIM) were elucidated by thermogravimetric analyses such as TGA, DTA and DSC, while some electronic structure parameters of the most stable dimers of NVIM were investigated through the structure calculations performed by using B3LYP method and 6-31+G(d) basis set within the density functional theory (DFT) methodology. PMID:25022498

  3. Atropisomerization of 8-Membered Dibenzolactam: Experimental NMR and Theoretical DFT Study.

    PubMed

    Buevich, Alexei V

    2016-01-15

    Detailed experimental and theoretical quantum mechanical analysis of the atropisomerization mechanism of a complex, bridged biaryl molecule with imbedded biphenyl, amine, and lactam moieties, 7,8-diallyl-5-benzyl-7,8-dihydrodibenzo[e,g][1,4]diazocin-6(5H)-one (1), was undertaken. Experimental Gibbs free activation energy, activation enthalpy, and activation entropy were established by temperature-dependent kinetic NMR experiments. Theoretical analysis utilized density functional theory (DFT) calculations at the B3LYP/6-31G(d) level of theory. Twelve energy minima and 17 transition states associated with five different atropisomer interconversion pathways were found by the combination of DFT calculated two-dimensional potential energy surfaces (2D PES) and the quadratic synchronous transit-guided (QST2) method. Among the five possible atropisomerization pathways, the lowest Gibbs free activation energy 25.8 kcal/mol was in close agreement with the experimentally determined value of 26.8 kcal/mol. Theoretical activation entropies and enthalpies were also consistent with experimental data. Geometrical and vibrational analysis of transition states and metastable intermediates suggested the mechanism of atropisomer interconversion of 1 as a rotation of the eclipsed endocyclic coordinate in a clockwise or counterclockwise direction along the ring. Puckering ability at least in one of the segments of the ring appears to be one of the most critical factors defining the height of atropisomerization barrier.

  4. Theoretical calculation (DFT), Raman and surface-enhanced Raman scattering (SERS) study of ponceau 4R

    NASA Astrophysics Data System (ADS)

    Xie, Yunfei; Li, Yan; Sun, Yingying; Wang, Heya; Qian, He; Yao, Weirong

    2012-10-01

    Ponceau 4R is used as a coloring agent in many different products, such as food, drinks, medicines, cosmetics and tobacco. However, ponceau 4R also shows carcinogenic, teratogenic and mutagenic behavior in high doses. In this work, standard Raman, theoretical Raman and surface-enhanced Raman scattering (SERS) spectra have been used to investigate ponceau 4R. More specifically, density functional theory (DFT) calculations have been used to calculate the optimized Raman spectrum of ponceau 4R at the B3LYP/6-31G(d) level. This has provided a better understanding of the optimized geometry and vibrational frequencies of this dye. In addition, the experimental spectrum of ponceau 4R has been compared with the theoretical spectrum; good agreement was obtained. Finally, it has shown that using SERS the detection limit of the ponceau 4R solution can be as low as 5 μg/mL. This has been achieved by SERS measurements of ponceau 4R on a substrate of gold nanoparticles. The SERS peaks at 1030, 1236, 1356 and 1502 cm-1 were chosen as index for semi-quantitative analysis, showing that the SERS technique provided a useful ultrasensitive method for the detection of ponceau 4R.

  5. Theoretical investigation of structures and energetics of sodium adatom and its dimer on graphene: DFT study

    NASA Astrophysics Data System (ADS)

    Kaur, Gagandeep; Gupta, Shuchi; Rani, Pooja; Dharamvir, Keya

    2015-11-01

    Extensive ab initio calculations have been performed to study the energetics of a sodium (Na) atom and its dimer adsorbed on graphene using the SIESTA package Soler et al. (2002) [1] which works within a DFT(density functional theory)-GGA (generalized gradient approximation) pseudopotential framework. The adsorption energy, geometry, charge transfer, ionization potential and density of states (DOS), partial density states (PDOS) of adatom/dimer-graphene system have been calculated. After considering various sites for adsorption of Na on graphene, the center of a hexagonal ring of carbon atoms is found to be the preferred site of adsorption while the Na2 dimer prefers to rest parallel to the graphene sheet. We find insignificant energy differences among adsorption configurations involving different possible sites in parallel orientation, which implies high mobility of the dimer on the graphene sheet. We also notice only a slight distortion of the graphene sheet perpendicular to its plane upon adatom adsorption. However, some lateral displacements seen are more perceptible. Summary The adsorption energy, geometry, charge transfer, ionization potential and density of states (DOS) and PDOS of adatom/dimer-graphene system have been calculated using SIESTA package Soler et al. (2002) [1] which works within a DFT(density functional theory)-GGA (generalized gradient approximation) pseudopotential framework. Preferred site for adsorption of a sodium atom on graphene is the hollow site. For the Na dimer adsorption, we found that horizontal orientation is favored over the vertical one. From DOS plots, it is clear that graphene's states are nearly unaffected by the adsorption of Na adatom and Interaction between sodium and graphene is predominantly ionic

  6. An experimental Raman and theoretical DFT study on the self-association of acrylonitrile.

    PubMed

    Alía, Jose M; Edwards, Howell G M; Fawcett, W Ronald; Smagala, Thomas G

    2007-02-01

    The liquid structure of acrylonitrile (propenenitrile) has been investigated using Raman spectroscopy and density functional theory (DFT) ab initio calculations with the 6-311++G** basis set. Two different and complementary experimental approaches were undertaken: FT-Raman spectra of 13 acrylonitrile solutions in carbon tetrachloride (concentration range=0.25-12.0 mol.L-1) were studied in detail including principal component analysis (PCA) of the CN stretching band. Furthermore, dispersive Raman spectra of neat acrylonitrile were obtained at eight different temperatures from 238 up to 343 K. The complex and asymmetric acrylonitrile Raman CN stretching band can be decomposed into two components attributed to monomeric and self-associated forms. Ab initio results fully support this assignment and suggest that the self-associated complex is a nonplanar trimer held together by dipole-dipole interactions. At ambient temperature, the composition of acrylonitrile can be expressed as a mixture of 25% monomers and 75% trimers. Close to the boiling point, trimers still represent 65% of the liquid composition. The corresponding enthalpy of association was estimated to be -22+/-2 kJ.mol-1.

  7. Substituent effects on the structure-property relationship of unsymmetrical methyloxy and methoxycarbonyl phthalocyanines: DFT and TDDFT theoretical studies.

    PubMed

    Zhang, Lijuan; Qi, Dongdong; Zhao, Luyang; Bian, Yongzhong; Li, Wenjun

    2012-05-01

    Density functional theory (DFT) and time-dependent density functional theory (TD-DFT) calculations were carried out to simulate the molecular and electronic structures together with the electronic absorption spectra of a series of peripheral methyloxy/methoxycarbonyl substituented phthalocyanines M[Pc(β-OMe)(2n)(β-COOMe)(8-2n)] (M=2H, Zn; n=0, 1, 2, 3, and 4). Fragment charge distribution and electrostatic potential analysis indicate that the presence of electron-withdrawing and -donation groups leads to the redistribution of charges and obvious polarization effects to the unsymmetrical phthalocyanine series. Peripheral methyloxy/methoxycarbonyl groups introduced onto phthalocyanine ring were revealed to destroy the degeneracy of LUMOs, resulting in significant Q-band splitting for the unsymmetrical phthalocyanine compounds. In addition, metal-free and zinc phthalocyanine compounds display similar electronic structures and absorptions due to the almost none contribution of the zinc atom or inner hydrogens to the frontier molecular orbitals. The microscopic mechanism of the UV-Vis spectra has been clarified on the basis of multi-band photon-induced electron transference. These theoretical studies would be helpful for the molecular design of novel unsymmetrical phthalocyanines.

  8. Theoretical DFT study on spectroscopic signature and molecular dynamics of neurotransmitter and effect of hydrogen removal

    NASA Astrophysics Data System (ADS)

    Mukherjee, V.; Singh, N. P.; Yadav, R. A.

    2013-04-01

    Vibrational spectroscopic study has been made for the serotonin molecule and its deprotonated form. The Infrared and Raman spectra in optimum geometry of these two molecules are calculated using density functional theorem and the normal modes are assigned using potential energy distributions (PEDs) which are calculated using normal coordinate analysis method. The vibrational frequencies of these two molecules are reported and a comparison has been made. The effect of removal of the hydrogen atom from the serotonin molecule upon its geometry and vibrational frequencies are studied. Electronic structures of these two molecules are also studied using natural bond orbital (NBO) analysis. Theoretical Raman spectrum of serotonin at different exciting laser frequencies and at different temperatures are obtained and the results are discussed. Present study reveals that some wrong assignments had been made for serotonin molecule in earlier study.

  9. Vibrational and theoretical DFT study of two regioregular methyl-disubstituted bithiophenes

    NASA Astrophysics Data System (ADS)

    Serrano, J.; Casado, J.; Hernández, V.; Favaretto, L.; Distefano, G.; López Navarrete, J. T.

    2001-05-01

    We report on the vibrational infrared and Raman spectra of two β-alkyl substituted bithiophenes with well-defined substitution patterns: the 3,3'-and the 4,4'-dimethyl-2,2'-bithiophenes. Interpretation of experimental data was aided by DFT calculations at the B3LYP/6-31G ∗∗ level. The two bithiophenes show Raman features which are common to many other classes of oligothiophenes and that can be ascribed within the formalism of the Effective Conjugation Coordinate theory to the existence of an efficient π-electron conjugation.

  10. PBE–DFT theoretical study of organic photovoltaic materials based on thiophene with 1D and 2D periodic boundary conditions

    SciTech Connect

    Saïl, K. Bassou, G.; Gafour, M. H.; Miloua, F.

    2015-12-15

    Conjugated organic systems such as thiophene are interesting topics in the field of organic solar cells. We theoretically investigate π-conjugated polymers constituted by n units (n = 1–11) based on the thiophene (Tn) molecule. The computations of the geometries and electronic structures of these compounds are performed using the density functional theory (DFT) at the 6–31 G(d, p) level of theory and the Perdew–Burke–Eenzerhof (PBE) formulation of the generalized gradient approximation with periodic boundary conditions (PBCs) in one (1D) and two (2D) dimensions. Moreover, the electronic properties (HOCO, LUCO, E{sub gap}, V{sub oc}, and V{sub bi}) are determined from 1D and 2D PBC to understand the effect of the number of rings in polythiophene. The absorption properties—excitation energies (E{sub ex}), the maximal absorption wavelength (λ{sub max}), oscillator strengths, and light harvesting—efficiency are studied using the time-dependent DFT method. Our studies show that changing the number of thiophene units can effectively modulate the electronic and optical properties. On the other hand, our work demonstrates the efficiency of theoretical calculation in the PBCs.

  11. Experimental (FTIR, Raman, UV-visible and PL) and theoretical (DFT and TDDFT) studies on bis(8-hydroxyquinolinium) tetrachlorocobaltate(II) compound

    NASA Astrophysics Data System (ADS)

    Chaouachi, Soumaya; Elleuch, Slim; Hamdi, Besma; Zouari, Ridha

    2016-12-01

    The purpose of this paper is to present the chemical preparation, crystal structure, vibrational study and optical features for new organic-inorganic compound [C9H8NO]2CoCl4 abbreviated [8-HQ]2CoCl4. The structural study by X-ray diffraction prove that this compound crystallize in a monoclinic unit-cell with space group C2/c (point group 2/m = C2h). It is built of tetrahedra [CoCl4]2- anions and (C9H8NO)+ cations in the 1/2 ratio. The crystal structure is stabilized by network three-dimensional of Nsbnd H⋯Cl, Nsbnd H⋯O, Osbnd H⋯Cl, Csbnd H⋯Cl hydrogen bonds, and offset π-π stacking interactions. Also, the Hirshfeld Surface projections and Fingerprint plots were elucidated the relative contribution of the type, nature and explore the H⋯Cl, C⋯H, C⋯C, C⋯N, H⋯O intermolecular contacts in the crystal in a visual manner. Furthermore, vibrational analysis of the structural groups in the compound was carried out by both Fourier transforms infrared (FT-IR) and Raman spectra. The spectral data are complemented by good information at the region characteristic of metal-ligand, which evidences coordination through the compound. The optical properties of the crystal were studied by using optical absorption UV-visible and photoluminescence (PL) spectroscopy studies. Theoretical calculations were performed using density functional theory (DFT) at (DFT/B3LYP/LanL2DZ) level in the aim of aiding in studying structural, vibrational and optical properties of the investigated compound. Good relationship consistency is found between the experimental and theoretical studies. Inspection of the optical properties has lead to confirm the exhibition of a green photoluminescence and the occurrence of charge transfer phenomenon in this material.

  12. Theoretical DFT and matrix isolation FTIR studies of 2-(1,2,4-triazolyl)phenol isomers

    NASA Astrophysics Data System (ADS)

    Pagacz-Kostrzewa, Magdalena; Sałdyka, Magdalena; Wierzejewska, Maria; Khomenko, Dmytro M.; Doroschuk, Roman O.

    2016-07-01

    The structure, isomerization pathways and vibrational spectra of the important heterocyclic 2-(1,2,4-triazolyl)phenol molecule were investigated by DFT calculations and matrix isolation FTIR spectroscopy. Among forty-five minima located on PES three isomers with intramolecular hydrogen bond Osbnd H⋯N, 2-TRP1, 1-TRP1 and 1-TRP2, are the most stable forms with the calculated abundance of 83.4%, 10.3% and 6.0%, respectively. The presented FTIR results allow identification and characterization of these species. Several hydrogen bond parameters such as OH bond distance, νOH wavenumber shift and occupancy of the antibonding σ∗(OH) orbital were found to be linearly related with the estimated interaction energy.

  13. A theoretical DFT study on the structural parameters and azide-tetrazole equilibrium in substituted azidothiazole systems

    NASA Astrophysics Data System (ADS)

    Abu-Eittah, Rafie H.; El-Kelany, Khaled E.

    2012-12-01

    Azido-tetrazole equilibrium is sensitive to: substitution, solvent, temperature and phase. In this work, the effects of the type and position of substitution on the thiazole ring of azidothiazoles on its structural parameters and on the azido-tetrazole equilibrium have been theoretically investigated using the density functional procedures at the B3LYP/6-311G∗∗ level of theory. This study includes the investigation of the equilibrium geometry, the transformation of the trans-conformer to the cis one then the ring closure to the tetrazole isomer. The transition states of the two steps were located, confirmed and the structural parameters were calculated. In all the steps of calculations, geometry optimization was considered. The results obtained indicate that substitution by: -NO2 and -CN group shifts the equilibrium to the azide side and in some cases the tetrazole isomer is not obtained. On the other hand, substitution by: -NH2 and -OH groups shifts the equilibrium to the tetrazole side and in some cases the azide isomer is not obtained and if formed changes spontaneously to the tetrazole isomer. The decisive parameters which determine the position of the equilibrium are: charge density on atoms N3 and N8, rearrangement of bond length and bond angles during the process of cyclization and variation of dipole moment as a result of cyclization. Results of this work indicate that substitution on C5 is more efficient than substitution on C4 of the thiazole ring.

  14. A theoretical study on the characteristics of the intermolecular interactions in the active site of human androsterone sulphotransferase: DFT calculations of NQR and NMR parameters and QTAIM analysis.

    PubMed

    Astani, Elahe K; Heshmati, Emran; Chen, Chun-Jung; Hadipour, Nasser L

    2016-07-01

    A theoretical study at the level of density functional theory (DFT) was performed to characterize noncovalent intermolecular interactions, especially hydrogen bond interactions, in the active site of enzyme human androsterone sulphotransferase (SULT2A1/ADT). Geometry optimization, interaction energy, (2)H, (14)N, and (17)O electric field gradient (EFG) tensors, (1)H, (13)C, (17)O, and (15)N chemical shielding (CS) tensors, Natural Bonding Orbital (NBO) analysis, and quantum theory of atoms in molecules (QTAIM) analysis of this active site were investigated. It was found that androsterone (ADT) is able to form hydrogen bonds with residues Ser80, Ile82, and His99 of the active site. The interaction energy calculations and NBO analysis revealed that the ADT molecule forms the strongest hydrogen bond with Ser80. Results revealed that ADT interacts with the other residues through electrostatic and Van der Waals interactions. Results showed that these hydrogen bonds influence on the calculated (2)H, (14)N, and (17)O quadrupole coupling constants (QCCs), as well as (1)H, (13)C, (17)O, and (15)N CS tensors. The magnitude of the QCC and CS changes at each nucleus depends directly on its amount of contribution to the hydrogen bond interaction. PMID:27337388

  15. Molecular structure of tetraaqua adenosine 5'-triphosphate aluminium(III) complex: a study involving Raman spectroscopy, theoretical DFT and potentiometry.

    PubMed

    Tenório, Thaís; Silva, Andréa M; Ramos, Joanna Maria; Buarque, Camilla D; Felcman, Judith

    2013-03-15

    The Alzheimer's disease is one of the most common neurodegenerative diseases that affect elderly population, due to the formation of β-amyloid protein aggregate and several symptoms, especially progressive cognitive decline. The result is a decrease in capture of glucose by cells leading to obliteration, meddling in the Krebs cycle, the principal biochemical route to the energy production leading to a decline in the levels of adenosine 5'-triphosphate. Aluminium(III) is connected to Alzheimer's and its ion provides raise fluidity of the plasma membrane, decrease cell viability and aggregation of amyloid plaques. Studies reveal that AlATP complex promotes the formation of reactive fibrils of β-amyloid protein and independent amyloidogenic peptides, suggesting the action of the complex as a chaperone in the role pathogenic process. In this research, one of complexes formed by Al(III) and adenosine 5'-triphosphate in aqueous solution is analyzed by potentiometry, Raman spectroscopy and ab initio calculations. The value of the logK(AlATP) found was 9.21±0.01 and adenosine 5'-triphosphate should act as a bidentate ligand in the complex. Raman spectroscopy and potentiometry indicate that donor atoms are the oxygen of the phosphate β and the oxygen of the phosphate γ, the terminal phosphates. Computational calculations using Density Functional Theory, with hybrid functions B3LYP and 6-311++G(d,p) basis set regarding water solvent effects, have confirmed the results. Frontier molecular orbitals, electrostatic potential contour surface, electrostatic potential mapped and Mulliken charges of the title molecule were also investigated.

  16. Molecular structure of tetraaqua adenosine 5'-triphosphate aluminium(III) complex: A study involving Raman spectroscopy, theoretical DFT and potentiometry

    NASA Astrophysics Data System (ADS)

    Tenório, Thaís; Silva, Andréa M.; Ramos, Joanna Maria; Buarque, Camilla D.; Felcman, Judith

    2013-03-01

    The Alzheimer's disease is one of the most common neurodegenerative diseases that affect elderly population, due to the formation of β-amyloid protein aggregate and several symptoms, especially progressive cognitive decline. The result is a decrease in capture of glucose by cells leading to obliteration, meddling in the Krebs cycle, the principal biochemical route to the energy production leading to a decline in the levels of adenosine 5'-triphosphate. Aluminium(III) is connected to Alzheimer's and its ion provides raise fluidity of the plasma membrane, decrease cell viability and aggregation of amyloid plaques. Studies reveal that AlATP complex promotes the formation of reactive fibrils of β-amyloid protein and independent amyloidogenic peptides, suggesting the action of the complex as a chaperone in the role pathogenic process. In this research, one of complexes formed by Al(III) and adenosine 5'-triphosphate in aqueous solution is analyzed by potentiometry, Raman spectroscopy and ab initio calculations. The value of the log KAlATP found was 9.21 ± 0.01 and adenosine 5'-triphosphate should act as a bidentate ligand in the complex. Raman spectroscopy and potentiometry indicate that donor atoms are the oxygen of the phosphate β and the oxygen of the phosphate γ, the terminal phosphates. Computational calculations using Density Functional Theory, with hybrid functions B3LYP and 6-311++G(d,p) basis set regarding water solvent effects, have confirmed the results. Frontier molecular orbitals, electrostatic potential contour surface, electrostatic potential mapped and Mulliken charges of the title molecule were also investigated.

  17. Theoretical and Electrochemical Study of the Quinone-Benzoic Acid Adduct Linked by Hydrogen Bonds DFT Study of Electronic Structure and Geometry of Neutral and Anionic Silver Clusters

    SciTech Connect

    Matulis, Vitaly E.; Ivashkevich, Oleg A.; Gurin, Valerij

    2003-12-15

    A comparative analysis of bond lengths vertical detachment energies (VDE), excitation energies of neutral clusters with geometry of anions and vertical ionization potentials of neutral clusters calculated within density functional theory (DFT) using different functionals with both effective core potential (ECP) and all-electron basis sets for silver clusters Ag n, have been carried out. DFT methods provide a good agreement between calculated and experimental data of some characteristics. The accurate prediction of all characteristics simultaneously can be achieved with all-electron DZVP basis set only. A new functional has been developed. It provides results close to experimental data using the moderate basis set. For anionic clusters Ag2?10-, the difference between calculations with this functional and experimental values of VDE and for the most stable isomers does not exceed 0.1 eV. Based on both total energy calculations and comparison of experimental and calculated photoelectron spectra, the structural assignment of clusters Ag7-, Ag9- and Ag10- has been made. The electronic structure and geometrical characteristics of the low-lying isomers has been studied.

  18. Experimental and theoretical studies of (FT-IR, FT-Raman, UV-Visible and DFT) 4-(6-methoxynaphthalen-2-yl) butan-2-one.

    PubMed

    Govindasamy, P; Gunasekaran, S

    2015-01-01

    In this work, the vibrational spectral analysis was carried out by using FT-Raman and FT-IR spectroscopy in the range 4000-50 cm(-1) and 4000-450 cm(-1) respectively for 4-(6-methoxynaphthalen-2-yl) butan-2-one (abbreviated as 4MNBO) molecule. Theoretical calculations were performed by density functional theory (DFT/B3LYP) method using 6-311G(d,p) and 6-311++G(d,p) basis sets. The difference between the observed and calculated wavenumber value of most of the fundamentals were very small. The complete vibrational assignments of wavenumbers were made on the basis of potential energy distribution (PED). The UV-Vis spectrum was recorded in the methanol solution. The energy, wavelength and oscillator's strength were calculated by Time Dependent Density Functional Theory (TD-DFT) and matched to the experimental findings. The intramolecular contacts have been interpreted using natural bond orbital (NBO) and natural localized molecular orbital (NLMO) analysis. Thermodynamic properties of 4MNBO at different temperature have been calculated. The molecular electrostatic potential surface (MESP) and Frontier molecular orbital's (FMO's) analysis were investigated using theoretical calculations.

  19. Theoretical study of zeatin - A plant hormone and potential drug for neural diseases - On the basis of DFT, MP2 and target docking

    NASA Astrophysics Data System (ADS)

    Liu, Xueping; Bereźniak, Tomasz; Panek, Jarosław Jan; Jezierska-Mazzarello, Aneta

    2013-02-01

    Zeatin, a cytokinin of the adenine family, originally isolated from Zea mays L., exhibits also bioeffects towards human cells: it is a potent acetylcholinesterase inhibitor and can potentially inhibit amyloid β-protein formation. The role of zeatin in neural disease treatment is yet to be established. This computational study describes a hierarchy of interactions between zeatin and a receptor, a protein from the nodulin family. DFT in hybrid and dispersion-corrected form as well as MP2 approaches were used to derive interaction energies. Docking procedure was employed to investigate the role of selected interaction for anchoring the ligand.

  20. Synthesis, spectroscopic characterization and crystallographic behavior of a biologically relevant novel indole-fused heterocyclic compound - Experimental and theoretical (DFT) studies

    NASA Astrophysics Data System (ADS)

    Sharma, Sakshi; Brahmachari, Goutam; Banerjee, Bubun; Nurjamal, Khondekar; Kumar, Abhishek; Srivastava, Ambrish Kumar; Misra, Neeraj; Pandey, Sarvesh Kumar; Rajnikant; Gupta, Vivek K.

    2016-08-01

    The present communication deals with the eco-friendly synthesis, spectral properties and X-ray crystal structure of an indole derivative - Ethyl 2'-amino-3'-cyano-6'-methyl-5-nitro-2-oxospiro [indoline-3,4'-pyran]-5'-carboxylate. The title compound was synthesized in 87% yield. The crystal structure of the molecule is stabilized by intermolecular Nsbnd H … N, Nsbnd H … O and Csbnd H … π interactions. The molecule is organized in the crystal lattice forming sheet like structure. To interpret the experimental data, ab initio computations of the vibrational frequencies were carried out using the Gaussian 09 program followed by the full optimizations done using Density Functional Theory (DFT) at B3LYP/6-31 + G(d,p) level. The combined use of experiments and computations allowed a firm assignment of the majority of observed bands for the compound. The calculated highest occupied molecular orbital (HOMO) and lowest unoccupied molecular orbital (LUMO) with frontier orbital gap were presented. The electronic and charge transfer properties have been explained on the basis of highest occupied molecular orbitals (HOMOs), lowest unoccupied molecular orbitals (LUMOs) and density of states (DOS). From the optimized geometry of the molecule, molecular electrostatic potential (MEP) distribution, frontier molecular orbitals (FMOs) of the title compound have been calculated in the ground state theoretically. The theoretical results showed good agreement with the experimental values. First hyperpolarizability values have been calculated to describe the nonlinear optical (NLO) property of the synthesized compound.

  1. Vibrations and reorientations of NH3 molecules in [Mn(NH3)6](ClO4)2 studied by infrared spectroscopy and theoretical (DFT) calculations.

    PubMed

    Hetmańczyk, Joanna; Hetmańczyk, Łukasz; Migdał-Mikuli, Anna; Mikuli, Edward

    2015-02-01

    The vibrational and reorientational motions of NH3 ligands and ClO4(-) anions were investigated by Fourier transform middle-infrared spectroscopy (FT-IR) in the high- and low-temperature phases of [Mn(NH3)6](ClO4)2. The temperature dependencies of full width at half maximum (FWHM) of the infrared bands at: 591 and 3385cm(-1), associated with: ρr(NH3) and νas(N-H) modes, respectively, indicate that there exist fast (correlation times τR≈10(-12)-10(-13)s) reorientational motions of NH3 ligands, with a mean values of activation energies: 7.8 and 4.5kJmol(-1), in the phase I and II, respectively. These reorientational motions of NH3 ligands are only slightly disturbed in the phase transition region and do not significantly contribute to the phase transition mechanism. Fourier transform far-infrared and middle-infrared spectra with decreasing of temperature indicated characteristic changes at the vicinity of PT at TC(c)=137.6K (on cooling), which suggested lowering of the crystal structure symmetry. Infrared spectra of [Mn(NH3)6](ClO4)2 were recorded and interpreted by comparison with respective theoretical spectra calculated using DFT method (B3LYP functional, LANL2DZ ECP basis set (on Mn atom) and 6-311+G(d,p) basis set (on H, N, Cl, O atoms) for the isolated equilibrium two models (Model 1 - separate isolated [Mn(NH3)6](2+) cation and ClO4(-) anion and Model 2 - [Mn(NH3)6(ClO4)2] complex system). Calculated optical spectra show a good agreement with the experimental infrared spectra (FT-FIR and FT-MIR) for the both models. PMID:25459713

  2. Vibrations and reorientations of NH3 molecules in [Mn(NH3)6](ClO4)2 studied by infrared spectroscopy and theoretical (DFT) calculations

    NASA Astrophysics Data System (ADS)

    Hetmańczyk, Joanna; Hetmańczyk, Łukasz; Migdał-Mikuli, Anna; Mikuli, Edward

    2015-02-01

    The vibrational and reorientational motions of NH3 ligands and ClO4- anions were investigated by Fourier transform middle-infrared spectroscopy (FT-IR) in the high- and low-temperature phases of [Mn(NH3)6](ClO4)2. The temperature dependencies of full width at half maximum (FWHM) of the infrared bands at: 591 and 3385 cm-1, associated with: ρr(NH3) and νas(N-H) modes, respectively, indicate that there exist fast (correlation times τR ≈ 10-12-10-13 s) reorientational motions of NH3 ligands, with a mean values of activation energies: 7.8 and 4.5 kJ mol-1, in the phase I and II, respectively. These reorientational motions of NH3 ligands are only slightly disturbed in the phase transition region and do not significantly contribute to the phase transition mechanism. Fourier transform far-infrared and middle-infrared spectra with decreasing of temperature indicated characteristic changes at the vicinity of PT at TCc = 137.6 K (on cooling), which suggested lowering of the crystal structure symmetry. Infrared spectra of [Mn(NH3)6](ClO4)2 were recorded and interpreted by comparison with respective theoretical spectra calculated using DFT method (B3LYP functional, LANL2DZ ECP basis set (on Mn atom) and 6-311 + G(d,p) basis set (on H, N, Cl, O atoms) for the isolated equilibrium two models (Model 1 - separate isolated [Mn(NH3)6]2+ cation and ClO4- anion and Model 2 - [Mn(NH3)6(ClO4)2] complex system). Calculated optical spectra show a good agreement with the experimental infrared spectra (FT-FIR and FT-MIR) for the both models.

  3. Photoinduced interaction studies on N-(2-methylthiophenyl)-2-hydroxy-1-naphthadiamine with TiO2 nanoparticles: A combined experimental and theoretical (DFT and spectroscopic) approach

    NASA Astrophysics Data System (ADS)

    Pushpam, S.; Gayathri, S.; Ramakrishnan, V.

    2014-12-01

    Schiff base derivative synthesized by the reaction of 2-(methylthio) aniline and 2-hydroxy-1-naphthaldehyde exhibits keto-amine tautomerism in methanol solvent. The fluorescence quenching of N-(2-methyl thiophenyl)-2-hydroxy-1-naphthadiamine (NMTHN) by TiO2 nanoparticles in methanol has been studied. The excitation and emission peaks have been observed at 439 and 509 nm respectively. The apparent association constant has been deduced from the absorption spectral changes of NMTHN-TiO2 nanoparticles using Bensi-Hildebrand equation. The number of binding sites and the binding constant have been calculated from the relevant fluorescence data. Quenching of fluorescence of NMTHN by TiO2 could be due to a dynamic mode. Density Functional Theory (DFT) calculations also have been performed to study the charge distribution of NMTHN-TiO2 both in ground and excited states. The HOMO-LUMO analysis of NMTHN-TiO2 in the ground state has been made.

  4. Theoretical study of adsorption of amino acids on graphene and BN sheet in gas and aqueous phase with empirical DFT dispersion correction.

    PubMed

    Singla, Preeti; Riyaz, Mohd; Singhal, Sonal; Goel, Neetu

    2016-02-21

    Understanding interactions of biomolecules with nanomaterials at the molecular level is crucial to design new materials for practical use. In the present study, adsorption of three distinct types of amino acids, namely, valine, arginine and aspartic acid, over the surface of structurally analogous but chemically different graphene and BN nanosheets has been explored within the formalism of DFT. The explicit dispersion correction incorporated in the computational methodology improves the accuracy of the results by accounting for long range van der Waals interactions and is essential for agreement with experimental values. The real biological environment has been mimicked by re-optimizing all the model structures in an aqueous medium. The study provides ample evidence in terms of adsorption energy, solvation energy, separation distance and charge analysis to conclude that both the nano-surfaces adsorb the amino acids with release of energy and there are no bonded interactions between the two. The polarity of the BN nanosheet provides it an edge over the graphene surface to have more affinity towards amino acids.

  5. Theoretical study of the adsorption of aromatic units on carbon allotropes including explicit (empirical) DFT dispersion corrections and implicitly dispersion-corrected functionals: the pyridine case.

    PubMed

    Ramos-Berdullas, Nicolás; Pérez-Juste, Ignacio; Van Alsenoy, Christian; Mandado, Marcos

    2015-01-01

    The suitability of implicitly dispersion-corrected functionals, namely the M06-2X, for the determination of interaction energies and electron polarization densities in adsorption studies of aromatic molecules on carbon allotropes surfaces is analysed by comparing the results with those obtained using explicit dispersion through Grimme's empirical corrections. Several models of increasing size for the graphene sheet together with one-dimensional curved carbon structures, (5,5), (6,6) and (7,7) armchair single-walled nanotubes, and two-dimensional curved carbon structures, C60 fullerene, have been considered as substrates in this work, whereas pyridine has been chosen as an example for the adsorbed aromatic molecule. Comparison with recent experimental estimations of the adsorption energy and calculations using periodic boundary conditions on a supercell of 72 carbon atoms indicates that a finite model containing ninety six carbon atoms (C96) approaches quite well the adsorption on a graphene sheet. Analysis of the interaction energy components reveals that the M06-2X functional accounts for most of the dispersion energy implicitly, followed far by wB97X and B3LYP, whereas B97 and BLYP do not differ too much from HF. It has been found that M06-2X corrects only the energy component associated to dispersion and leaves the rest, electrostatic, Pauli and induction "unaltered" with respect to the other DFT functionals investigated. Moreover, only the M06-2X functional reflects the effect of dispersion on the electron polarization density, whereas for the remaining functionals the polarization density does not differ too much from the HF density. This makes the former functional more suitable a priori for the calculation of electron density related properties in these adsorption complexes.

  6. PCM/TD-DFT analysis of 1-bromo-2,3-dichlorobenzene - A combined study of experimental (FT-IR and FT-Raman) and theoretical calculations

    NASA Astrophysics Data System (ADS)

    Arivazhagan, M.; Muniappan, P.; Meenakshi, R.; Rajavel, G.

    2013-03-01

    This study represents an integral approach towards understanding the electronic and structural aspects of 1-bromo-2,3-dichlorobenzene (BDCB). The experimental spectral bands were structurally assigned with the theoretical calculation, and the thermodynamic properties of the studied compound were obtained from the theoretically calculated frequencies. The relationship between the structure and absorption spectrum and effects of solvents have been discussed. It turns that the hybrid PBE1PBE functional with 6-311+G(d,p) basis provide reliable λmax when solvent effects are included in the model. The NBO analysis reveals that the studied compound presents a structural characteristic of electron-transfer within the compound. The frontier molecular orbitals (HOMO-LUMO) are responsible for the electron polarization and electron-transfer properties. The reactivity sites are identified by mapping the electron density into electrostatic potential surface (MESP). Besides, 13C and 1H have been calculated using the gauge-invariant atomic orbital (GIAO) method. The thermodynamic properties at different temperatures were calculated, revealing the correlations between standard heat capacity, standard entropy, standard enthalpy changes and temperatures. Furthermore, the studied compound can be used as a good nonlinear optical material due to the higher value of first hyper polarizability (5.7 times greater than that of urea (0.37289 × 10-30 esu)). Finally, it is worth to mentioning that solvent induces a considerable red shift of the absorption maximum going from the gas phase, and a slight blue shift of the transition S0 → S1 going from less polar to more polar solvents.

  7. Microwave assistant synthesis, antifungal activity and DFT theoretical study of some novel 1,2,4-triazole derivatives containing pyridine moiety.

    PubMed

    Sun, Guo-Xiang; Yang, Ming-Yan; Shi, Yan-Xia; Sun, Zhao-Hui; Liu, Xing-Hai; Wu, Hong-Ke; Li, Bao-Ju; Zhang, Yong-Gang

    2014-01-01

    In order to investigate the biological activity of novel 1,2,4-triazole compounds, seventeen novel 1,2,4-triazole derivatives containing pyridine moiety were synthesized under microwave assistant condition by multi-step reactions. The structures were characterized by 1H NMR, MS and elemental analyses. The target compounds were evaluated for their fungicidal activities against Stemphylium lycopersici (Enjoji) Yamamoto, Fusarium oxysporum. sp. cucumebrium, and Botrytis cinerea in vivo, and the results indicated that some of the title compounds displayed excellent fungicidal activities. Theoretical calculation of the title compound was carried out with B3LYP/6-31G (d,p). The full geometry optimization was carried out using 6-31G (d,p) basis set, and the frontier orbital energy, atomic net charges were discussed, and the structure-activity relationship was also studied. PMID:24815069

  8. DFT theoretical and FT-IR spectroscopic investigations of the plasticity of clay minerals dispersions

    NASA Astrophysics Data System (ADS)

    Kasprzhitskii, A.; Lazorenko, G.; Yavna, V.; Daniel, Ph.

    2016-04-01

    Plasticity is the most important property of dispersions of clay minerals that determine the character of participation of these systems in many natural and technological processes. We report on the results of studies of hydration mechanism in typical clay minerals making part of natural dispersions of sedimentation masses by means of IR spectroscopy and theoretical density functional theory (DFT) methods. X-ray diffraction analysis of clay minerals of Millerovo mineral deposit (Russian Federation) is carried out. Regularities and peculiarities of interaction of water molecules with kaolinite basal planes (001) and (00 1 bar) are analyzed. The role of water in the formation of plasticity of clay minerals dispersions is revealed. The modes of water molecules placement and their state and structure in the system "clay mineral-water" is defined. Phase transition processes of clay minerals dispersion into plastic and liquid state and their influence on spectral characteristics of the systems are investigated. The interpretation of clay minerals phase transitions into plastic and fluid state based on the results of DFT simulation is given. The relation is established between specific variation of spectral characteristics and phase transitions of clay minerals dispersions into plastic and liquid state.

  9. Structure, IR and Raman spectra of phosphotrihydrazide studied by DFT

    NASA Astrophysics Data System (ADS)

    Furer, V. L.; Vandyukov, A. E.; Majoral, J. P.; Caminade, A. M.; Kovalenko, V. I.

    2016-09-01

    The FTIR and FT Raman measurements of the phosphotrihydrazide (S)P[N(Me)-NH2]3 have been performed. This compound is a zero generation dendrimer G0 with terminal amine groups. Structural optimization and normal mode analysis were obtained for G0 by the density functional theory (DFT). Optimized geometric bond length and angles obtained by DFT show good agreement with experiment. The amine terminal groups are characterized by the well-defined bands at 3321, 3238, 1614 cm- 1 in the experimental IR spectrum and by bands at 3327, 3241 cm- 1 in the Raman spectrum of G0. The experimental frequencies of asymmetric and symmetric NH2 stretching vibrations of amine group are lower than theoretical values due to intramolecular Nsbnd H ⋯ S hydrogen bond. This hydrogen bond is also responsible for higher experimental infrared intensity of these bands as compared with theoretical values. Relying on DFT calculations a complete vibrational assignment is proposed for the studied dendrimer.

  10. Structure, IR and Raman spectra of phosphotrihydrazide studied by DFT.

    PubMed

    Furer, V L; Vandyukov, A E; Majoral, J P; Caminade, A M; Kovalenko, V I

    2016-09-01

    The FTIR and FT Raman measurements of the phosphotrihydrazide (S)P[N(Me)-NH2]3 have been performed. This compound is a zero generation dendrimer G0 with terminal amine groups. Structural optimization and normal mode analysis were obtained for G0 by the density functional theory (DFT). Optimized geometric bond length and angles obtained by DFT show good agreement with experiment. The amine terminal groups are characterized by the well-defined bands at 3321, 3238, 1614cm(-1) in the experimental IR spectrum and by bands at 3327, 3241cm(-1) in the Raman spectrum of G0. The experimental frequencies of asymmetric and symmetric NH2 stretching vibrations of amine group are lower than theoretical values due to intramolecular NH⋯S hydrogen bond. This hydrogen bond is also responsible for higher experimental infrared intensity of these bands as compared with theoretical values. Relying on DFT calculations a complete vibrational assignment is proposed for the studied dendrimer. PMID:27179692

  11. Ab-initio DFT FP-LAPW GGA and LDA TB-mBJ and SO theoretical study of structural and elastic properties of Zinc-Blende crystal phase GaAs1-xBix alloys

    NASA Astrophysics Data System (ADS)

    Menezla, S.; Kadri, A.; Zitouni, K.; Djelal, A.; Djermouni, M.; Hallouche, A.; Zaoui, A.

    2015-12-01

    We present an ab-initio theoretical study of structural and elastic properties of GaAs1-xBix alloys in the Zinc-Blende (ZB) phase. We use a recent version of Wien2k package code based on Density Functional Theory (DFT) Full Potential and Linearized Augmented Plane Waves (FP-LAPW) method including recent Tran-Blaha modified Becke-Johnson correction of the exchange potential (TB-mBJ) and the spin-orbit interaction (SO). The calculations are performed within the Local Density Approximation (LDA) as well as the Generalized Gradient Approximation (GGA). We study first the structural properties of GaAs1-xBix alloys by solving Murnaghan equation of state. Our results show that the ZB phase is the lowest equilibrium crystal structure of GaAs1-xBix in the whole alloy composition range, in agreement with previous theoretical predictions. The variations versus Bi contents of the ZB GaAs1-xBix lattice constant a0, bulk modulus B0 and its pressure derivative B0‧ are also found very close to other theoretical and experimental data, but with much smaller bowing effects indicating a better resolution thanks to TB-mBJ correction. The variations of B0 versus the reverse equilibrium volume of the unit cell (1/V0) are found to be described by the simple linear empirical expression B0 = -0.21068 + 0.16695/V0 which is close to the theoretical prediction for III-V semiconductors with, however, somewhat lower linear coefficients values, suggesting a more metallic behavior. In a second part of this work, we use Birch-Murnaghan approach to study the elastic properties of GaAs1-xBix alloys. The elastic stiffness coefficients, C11, C12 and C44, and their variations versus alloy composition were determined for ZB GaAs1-xBix alloy. Their values in GaAs and GaBi binary compounds are found in very good agreement with available experimental and/or theoretical data. Their variations in GaAs1-xBix alloy show a monotonic decrease with increasing Bi contents, indicating a softening behavior as is

  12. Direct and remarkably efficient conversion of methane into acetic acid catalyzed by amavadine and related vanadium complexes. A synthetic and a theoretical DFT mechanistic study.

    PubMed

    Kirillova, Marina V; Kuznetsov, Maxim L; Reis, Patrícia M; da Silva, José A L; da Silva, João J R Fraústo; Pombeiro, Armando J L

    2007-08-29

    Vanadium(IV or V) complexes with N,O- or O,O-ligands, i.e., [VO{N(CH2CH2O)3}], Ca[V(HIDPA)2] (synthetic amavadine), Ca[V(HIDA)2], or [Bu4N]2[V(HIDA)2] [HIDPA, HIDA = basic form of 2,2'-(hydroxyimino)dipropionic or -diacetic acid, respectively], [VO(CF3SO3)2], Ba[VO(nta)(H2O)]2 (nta = nitrilotriacetate), [VO(ada)(H2O)] (ada = N-2-acetamidoiminodiacetate), [VO(Hheida)(H2O)] (Hheida = 2-hydroxyethyliminodiacetate), [VO(bicine)] [bicine = basic form of N,N-bis(2-hydroxyethyl)glycine], and [VO(dipic)(OCH2CH3)] (dipic = pyridine-2,6-dicarboxylate), are catalyst precursors for the efficient single-pot conversion of methane into acetic acid, in trifluoroacetic acid (TFA) under moderate conditions, using peroxodisulfate as oxidant. Effects on the yields and TONs of various factors are reported. TFA acts as a carbonylating agent and CO is an inhibitor for some systems, although for others there is an optimum CO pressure. The most effective catalysts (as amavadine) bear triethanolaminate or (hydroxyimino)dicarboxylates and lead, in a single batch, to CH3COOH yields > 50% (based on CH4) or remarkably high TONs up to 5.6 x 103. The catalyst can remain active upon multiple recycling of its solution. Carboxylation proceeds via free radical mechanisms (CH3* can be trapped by CBrCl3), and theoretical calculations disclose a particularly favorable process involving the sequential formation of CH3*, CH3CO*, and CH3COO* which, upon H-abstraction (from TFA or CH4), yields acetic acid. The CH3COO* radical is formed by oxygenation of CH3CO* by a peroxo-V complex via a V{eta1-OOC(O)CH3} intermediate. Less favorable processes involve the oxidation of CH3CO* by the protonated (hydroperoxo) form of that peroxo-V complex or by peroxodisulfate. The calculations also indicate that (i) peroxodisulfate behaves as a source of sulfate radicals which are methane H-abstractors, as a peroxidative and oxidizing agent for vanadium, and as an oxidizing and coupling agent for CH3CO* and that (ii) TFA is

  13. Experimental (XAS STEM TPR and XPS) and Theoretical (DFT) Characterization of Supported Rhenium Catalysts

    SciTech Connect

    S Bare; S Kelly; F Vila; D Boldingh; E Karapetrova; J Kas; G Mickelson; F Modica; N Yang; J Rehr

    2011-12-31

    A high surface area supported Re-based catalyst, fundamental to heterogeneous catalysis, is studied in the oxidic and reduced states using a combination of experimental (XAFS, STEM, TPR, and XPS) and theoretical (DFT and X-ray spectroscopy simulations) approaches. In the calcined dried catalyst, the Re species is present as an isolated trioxo(oxoaluminate) Re(VII) species. The temperature at which the Re undergoes reduction is a function of the hydrogen partial pressure and temperature ramp rate, but the maximum rate of reduction occurs in the range 300-400 C. Following reduction at 500 or 700 C in dry hydrogen, the Re is present as a mixture of species: unreduced trioxo(oxoaluminate) Re(VII) species, Re nanoclusters, and isolated Re atoms. By using a multifaceted approach, it is apparent that the majority species is an isolated Re adatom bound to the alumina support. DFT calculations identify several likely adsorption sites for these Re adatoms on the [110] surface of {gamma}-Al{sub 2}O{sub 3}. The final extended X-ray absorption fine structure (EXAFS) model taking into account these three species is used to identify the dominant adsorption site for Re on the alumina surface. FEFF8 X-ray absorption near-edge spectroscopy (XANES) calculations of unsupported and alumina-supported Re nanoclusters provide interpretation of the shape and edge position of the Re L{sub 3}-edge XANES after reduction. The presence of moisture during reduction stronly affects the mobility of the Re on the alumina leading to agglomeration. Subsequent air exposure of a reduced catalyst readily reoxidizes the reduced Re. The power of using a combination of analysis tools provides insight into the behavior of dispersed Re on supported alumina under oxidizing and reducing conditions relevant to heterogeneous catalysis.

  14. Synthesis of 4-((1E, 6E)-7-(4-hydroxy-3-methoxyphenyl)-3, 5-dioxohepta-1, 6-dienyl)-2-methoxyphenyl 4-fluorobenzoate, a novel monoester derivative of curcumin, its experimental and theoretical (DFT) studies

    NASA Astrophysics Data System (ADS)

    Srivastava, Sangeeta; Gupta, Preeti; Amandeep; Singh, Ranvijay Pratap

    2016-04-01

    Curcumin (1), isolated as a major component from the chloroform extract of Curcuma longa was converted to its ester derivative 4-((1E, 6E)-7-(4-hydroxy-3-methoxyphenyl)-3,5-dioxohepta-1,6-dienyl)-2-methoxyphenyl 4-fluorobenzoate (2). The compound has been characterized with the help of 1H, 13C NMR, UV, IR and mass spectrometry. The molecular geometry of synthesized compound was calculated in ground state by Density functional theory (DFT/B3LYP) using 6-31G (d,p) basis set. 1H and 13C NMR chemical shifts were calculated in ground state by using Gauge-Including Atomic Orbital (GIAO) approach and these values were correlated with experimental observations. The electronic properties such as HOMO and LUMO energies were calculated using time dependent Density Functional Theory (TD-DFT). Stability of the molecule as a result of hyper conjugative interactions and electron delocalization were analysed using Natural bond orbital (NBO) analysis. Intramolecular interactions were analysed by AIM (Atom in molecule) approach. Global reactivity descriptors were calculated to study the reactive site within molecule. The vibrational wavenumbers were calculated using DFT method and assigned with the help of potential energy distribution (PED). First hyperpolarizability values have been calculated to describe the nonlinear optical (NLO) property of the synthesized compounds. Molecular electrostatic potential (MEP) analysis has also been carried out.

  15. Theoretical simulations on the antioxidant mechanism of naturally occurring flavonoid: A DFT approach

    NASA Astrophysics Data System (ADS)

    Praveena, R.; Sadasivam, K.

    2016-05-01

    Synthetic antioxidants such as butylated hydroxyanisole (BHA) and butylated hydroxytoluene (BHT) are found to be toxic, hence non-carcinogenic naturally occurring radical scavengers especially flavonoids have gained considerable importance in the past two decades. In the present investigation, the radical scavenging activity of C-glycosyl flavonoids is evaluated using theoretical approach which could broaden its scope in therapeutic applications. Gas and solvent phase studies of structural and molecular characteristics of C-glycosyl flavonoid, isovitexin is investigated through hydrogen atom transfer mechanism (HAT), Electron transfer-proton transfer (ET-PT) and Sequential proton loss electron transfer (SPLET) by Density functional theory (DFT) using hybrid parameters. The computed values of the adiabatic ionization potential, electron affinity, hardness, softness, electronegativity and electrophilic index indicate that isovitexin possess good radical scavenging activity. The behavior of different -OH groups in polyphenolic compounds is assessed by considering electronic effects of the neighbouring groups and the overall geometry of molecule which in turn helps in analyzing the antioxidant capacity of the polyphenolic molecule. The studies indicate that the H-atom abstraction from 4'-OH site is preferred during the radical scavenging process. From Mulliken spin density analysis and FMOs, B-ring is found to be more delocalized center and capable of electron donation. Comparison of antioxidant activity of vitexin and isovitexin leads to the conclusion that isovitexin acts as a better radical scavenger. This is an evidence for the importance of position of glucose unit in the flavonoid.

  16. DFT Studies of SN2 Dechlorination of Polychlorinated Biphenyls.

    PubMed

    Krzemińska, Agnieszka; Paneth, Piotr

    2016-06-21

    Nucleophilic dechlorination of all 209 PCBs congeners by ethylene glycol anion has been studied theoretically at the DFT level. The obtained Gibbs free energies of activation are in the range 7-22 kcal/mol. The reaction Gibbs free energies indicate that all reactions are virtually irreversible. Due to geometric constrains these reactions undergo rather untypical attack with attacking oxygen atom being nearly perpendicular to the attacked C-Cl bond. The most prone to substitution are chlorine atoms that occupy ortho- (2, 2', 6, 6') positions. These results provide extensive information on the PEG/KOH dependent PCBs degradation. They can also be used in further developments of reaction class transition state theory (RC-TST) for description of complex reactive systems encountered for example in combustion processes. PMID:27244043

  17. Inelastic and elastic neutron scattering studies of the vibrational and reorientational dynamics, crystal structure and solid-solid phase transition in [Mn(OS(CH₃)₂)₆](ClO₄)₂ supported by theoretical (DFT) calculations.

    PubMed

    Szostak, Elżbieta; Hetmańczyk, Joanna; Migdał-Mikuli, Anna

    2015-06-15

    The vibrational and reorientational dynamics of CH3 groups from (CH3)2SO ligands in the high- and low-temperature phases of [Mn(OS(CH3)2)6](ClO4)2 were investigated by quasielastic and inelastic incoherent neutron scattering (QENS and IINS) methods. The results show that above the phase transition temperature (detected earlier by differential scanning calorimetry (DSC) at TC5(c)=222.9K on cooling and at TC5(h)=225.4K on heating) the CH3 groups perform fast (τR≈10(-12)-10(-13)s) reorientational motions. These motions start to slow down below TC5(c) Neutron powder diffraction (NPD) measurements, performed simultaneously with QENS and IINS, indicated that this phase transition is associated with a change of the crystal structure, too. Theoretical infrared absorption, Raman and inelastic incoherent neutron scattering spectra were calculated using DFT method (B3LYP functional, LANL2DZ ECP basis set (on Mn atom) and 6-311+G(d,p) basis set (on C, H, S, O atoms) for the isolated equilibrium model (isolated [Mn(DMSO)6](2+) cation and ClO4(-) anion). Calculated spectra show a good agreement with the experimental spectra (FT-IR, RS and IINS). The comparison of the results obtained by these complementary methods was made. PMID:25795611

  18. Inelastic and elastic neutron scattering studies of the vibrational and reorientational dynamics, crystal structure and solid-solid phase transition in [Mn(OS(CH3)2)6](ClO4)2 supported by theoretical (DFT) calculations

    NASA Astrophysics Data System (ADS)

    Szostak, Elżbieta; Hetmańczyk, Joanna; Migdał-Mikuli, Anna

    2015-06-01

    The vibrational and reorientational dynamics of CH3 groups from (CH3)2SO ligands in the high- and low-temperature phases of [Mn(OS(CH3)2)6](ClO4)2 were investigated by quasielastic and inelastic incoherent neutron scattering (QENS and IINS) methods. The results show that above the phase transition temperature (detected earlier by differential scanning calorimetry (DSC) at TC5c = 222.9 K on cooling and at TC5h = 225.4 K on heating) the CH3 groups perform fast (τR ≈ 10-12-10-13 s) reorientational motions. These motions start to slow down below TC5c Neutron powder diffraction (NPD) measurements, performed simultaneously with QENS and IINS, indicated that this phase transition is associated with a change of the crystal structure, too. Theoretical infrared absorption, Raman and inelastic incoherent neutron scattering spectra were calculated using DFT method (B3LYP functional, LANL2DZ ECP basis set (on Mn atom) and 6-311+G(d,p) basis set (on C, H, S, O atoms) for the isolated equilibrium model (isolated [Mn(DMSO)6]2+ cation and ClO4- anion). Calculated spectra show a good agreement with the experimental spectra (FT-IR, RS and IINS). The comparison of the results obtained by these complementary methods was made.

  19. Inelastic and elastic neutron scattering studies of the vibrational and reorientational dynamics, crystal structure and solid-solid phase transition in [Mn(OS(CH₃)₂)₆](ClO₄)₂ supported by theoretical (DFT) calculations.

    PubMed

    Szostak, Elżbieta; Hetmańczyk, Joanna; Migdał-Mikuli, Anna

    2015-06-15

    The vibrational and reorientational dynamics of CH3 groups from (CH3)2SO ligands in the high- and low-temperature phases of [Mn(OS(CH3)2)6](ClO4)2 were investigated by quasielastic and inelastic incoherent neutron scattering (QENS and IINS) methods. The results show that above the phase transition temperature (detected earlier by differential scanning calorimetry (DSC) at TC5(c)=222.9K on cooling and at TC5(h)=225.4K on heating) the CH3 groups perform fast (τR≈10(-12)-10(-13)s) reorientational motions. These motions start to slow down below TC5(c) Neutron powder diffraction (NPD) measurements, performed simultaneously with QENS and IINS, indicated that this phase transition is associated with a change of the crystal structure, too. Theoretical infrared absorption, Raman and inelastic incoherent neutron scattering spectra were calculated using DFT method (B3LYP functional, LANL2DZ ECP basis set (on Mn atom) and 6-311+G(d,p) basis set (on C, H, S, O atoms) for the isolated equilibrium model (isolated [Mn(DMSO)6](2+) cation and ClO4(-) anion). Calculated spectra show a good agreement with the experimental spectra (FT-IR, RS and IINS). The comparison of the results obtained by these complementary methods was made.

  20. Structural, vibrational and nuclear magnetic resonance investigations of 4-bromoisoquinoline by experimental and theoretical DFT methods

    NASA Astrophysics Data System (ADS)

    Arjunan, V.; Thillai Govindaraja, S.; Jayapraksh, A.; Mohan, S.

    2013-04-01

    Quantum chemical calculations of energy, structural parameters and vibrational wavenumbers of 4-bromoisoquinoline (4BIQ) were carried out by using B3LYP method using 6-311++G**, cc-pVTZ and LANL2DZ basis sets. The optimised geometrical parameters obtained by DFT calculations are in good agreement with electron diffraction data. Interpretations of the experimental FTIR and FT-Raman spectra have been reported with the aid of the theoretical wavenumbers. The differences between the observed and scaled wavenumber values of most of the fundamentals are very small. The thermodynamic parameters have also been computed. Electronic properties of the molecule were discussed through the molecular electrostatic potential surface, HOMO-LUMO energy gap and NBO analysis. To provide precise assignments of 1H and 13C NMR spectra, isotropic shielding and chemical shifts were calculated with the Gauge-Invariant Atomic Orbital (GIAO) method.

  1. 3-Iodobenzaldehyde: XRD, FT-IR, Raman and DFT studies.

    PubMed

    Kumar, Chandraju Sadolalu Chidan; Parlak, Cemal; Tursun, Mahir; Fun, Hoong-Kun; Rhyman, Lydia; Ramasami, Ponnadurai; Alswaidan, Ibrahim A; Keşan, Gürkan; Chandraju, Siddegowda; Quah, Ching Kheng

    2015-06-15

    The structure of 3-iodobenzaldehyde (3IB) was characterized by FT-IR, Raman and single-crystal X-ray diffraction techniques. The conformational isomers, optimized geometric parameters, normal mode frequencies and corresponding vibrational assignments of 3IB were examined using density functional theory (DFT) method, with the Becke-3-Lee-Yang-Parr (B3LYP) functional and the 6-311+G(3df,p) basis set for all atoms except for iodine. The LANL2DZ effective core basis set was used for iodine. Potential energy distribution (PED) analysis of normal modes was performed to identify characteristic frequencies. 3IB crystallizes in monoclinic space group P21/c with the O-trans form. There is a good agreement between the theoretically predicted structural parameters, and vibrational frequencies and those obtained experimentally. In order to understand halogen effect, 3-halogenobenzaldehyde [XC6H4CHO; X=F, Cl and Br] was also studied theoretically. The free energy difference between the isomers is small but the rotational barrier is about 8kcal/mol. An atypical behavior of fluorine affecting conformational preference is observed.

  2. 3-Iodobenzaldehyde: XRD, FT-IR, Raman and DFT studies.

    PubMed

    Kumar, Chandraju Sadolalu Chidan; Parlak, Cemal; Tursun, Mahir; Fun, Hoong-Kun; Rhyman, Lydia; Ramasami, Ponnadurai; Alswaidan, Ibrahim A; Keşan, Gürkan; Chandraju, Siddegowda; Quah, Ching Kheng

    2015-06-15

    The structure of 3-iodobenzaldehyde (3IB) was characterized by FT-IR, Raman and single-crystal X-ray diffraction techniques. The conformational isomers, optimized geometric parameters, normal mode frequencies and corresponding vibrational assignments of 3IB were examined using density functional theory (DFT) method, with the Becke-3-Lee-Yang-Parr (B3LYP) functional and the 6-311+G(3df,p) basis set for all atoms except for iodine. The LANL2DZ effective core basis set was used for iodine. Potential energy distribution (PED) analysis of normal modes was performed to identify characteristic frequencies. 3IB crystallizes in monoclinic space group P21/c with the O-trans form. There is a good agreement between the theoretically predicted structural parameters, and vibrational frequencies and those obtained experimentally. In order to understand halogen effect, 3-halogenobenzaldehyde [XC6H4CHO; X=F, Cl and Br] was also studied theoretically. The free energy difference between the isomers is small but the rotational barrier is about 8kcal/mol. An atypical behavior of fluorine affecting conformational preference is observed. PMID:25767992

  3. 3-Iodobenzaldehyde: XRD, FT-IR, Raman and DFT studies

    NASA Astrophysics Data System (ADS)

    Kumar, Chandraju Sadolalu Chidan; Parlak, Cemal; Tursun, Mahir; Fun, Hoong-Kun; Rhyman, Lydia; Ramasami, Ponnadurai; Alswaidan, Ibrahim A.; Keşan, Gürkan; Chandraju, Siddegowda; Quah, Ching Kheng

    2015-06-01

    The structure of 3-iodobenzaldehyde (3IB) was characterized by FT-IR, Raman and single-crystal X-ray diffraction techniques. The conformational isomers, optimized geometric parameters, normal mode frequencies and corresponding vibrational assignments of 3IB were examined using density functional theory (DFT) method, with the Becke-3-Lee-Yang-Parr (B3LYP) functional and the 6-311+G(3df,p) basis set for all atoms except for iodine. The LANL2DZ effective core basis set was used for iodine. Potential energy distribution (PED) analysis of normal modes was performed to identify characteristic frequencies. 3IB crystallizes in monoclinic space group P21/c with the O-trans form. There is a good agreement between the theoretically predicted structural parameters, and vibrational frequencies and those obtained experimentally. In order to understand halogen effect, 3-halogenobenzaldehyde [XC6H4CHO; X = F, Cl and Br] was also studied theoretically. The free energy difference between the isomers is small but the rotational barrier is about 8 kcal/mol. An atypical behavior of fluorine affecting conformational preference is observed.

  4. Detection of electronically equivalent tautomers of adenine base: DFT study

    SciTech Connect

    Siddiqui, Shamoon Ahmad; Bouarissa, Nadir; Rasheed, Tabish; Al-Assiri, M.S.; Al-Hajry, A.

    2014-03-01

    Graphical abstract: - Highlights: • DFT calculations have been performed on adenine and its rare tautomer Cu{sup 2+} complexes. • Interaction of A-Cu{sup 2+} and rA-Cu{sup 2+} complexes with AlN modified fullerene (C{sub 60}) have been studied briefly. • It is found that AlN modified C{sub 60} could be used as a nanoscale sensor to detect these two A-Cu{sup 2+} and rA-Cu{sup 2+} complexes. - Abstract: In the present study, quantum chemical calculations were carried out to investigate the electronic structures and stabilities of adenine and its rare tautomer along with their Cu{sup 2+} complexes. Density Functional Theory (B3LYP method) was used in all calculations. The two Cu{sup 2+} complexes of adenine have almost similar energies and electronic structures; hence, their chemical differentiation is very difficult. For this purpose, interactions of these complexes with AlN modified fullerene (C{sub 60}) have been studied. Theoretical investigations reveal that AlN-doped C{sub 60} may serve as a potentially viable nanoscale sensor for detection of the two Cu{sup 2+} complexes of adenine.

  5. Why use DFT methods in the study of carbohydrates?

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The recent advances in density functional theory (DFT) and computer technology allow us to study systems with more than 100 atoms routinely. This makes it feasible to study large carbohydrate molecules via quantum mechanical methods, whereas in the past, studies of carbohydrates were restricted to ...

  6. The solvatochromic, spectral, and geometrical properties of nifenazone: a DFT/TD-DFT and experimental study.

    PubMed

    Bani-Yaseen, Abdulilah Dawoud; Al-Balawi, Mona

    2014-08-01

    The solvatochromic, spectral, and geometrical properties of nifenazone (NIF), a pyrazole-nicotinamide drug, were experimentally and computationally investigated in several neat solvents and in hydro-organic binary systems such as water-acetonitrile and water-dioxane systems. The bathochromic spectral shift observed in NIF absorption spectra when reducing the polarity of the solvent was correlated with the orientation polarizability (Δf). Unlike aprotic solvents, a satisfactory correlation between λ(max) and Δf was determined (linear correlation of regression coefficient, R, equal to 0.93) for polar protic solvents. In addition, the medium-dependent spectral properties were correlated with the Kamlet-Taft solvatochromic parameters (α, β, and π*) by applying a multiple linear regression analysis (MLRA). The results obtained from this analysis were then employed to establish MLRA relationships for NIF in order to estimate the spectral shift in different solvents, which in turn exhibited excellent correlation (R > 0.99) with the experimental values of ν(max). Density functional theory (DFT) and time-dependent DFT theory calculations coupled with the integral equation formalism-polarizable continuum model (IEF-PCM) were performed to investigate the solvent-dependent spectral and geometrical properties of NIF. The calculations showed good and poor agreements with the experimental results using the CAM-B3LYP and B3LYP functionals, respectively. Experimental and theoretical results confirmed that the chemical properties of NIF are strongly dependent on the polarity of the chosen medium and its hydrogen bonding capability. This in turn supports the hypothesis of the delocalization of the electron density within the pyrazole ring of NIF.

  7. Is It Fe(III)-Oxyl Radical That Abstracts Hydrogen in the C-H Activation of TauD? A Theoretical Study Based on the DFT Potential Energy Surfaces.

    PubMed

    Mai, Binh Khanh; Kim, Yongho

    2016-04-18

    Taurine:α-ketoglutarate dioxygenase (TauD) is one of the most important enzymes in the α-ketoglutarate dioxygenase family, which are involved in many important biochemical processes. TauD converts taurine into amino acetaldehyde and sulfite at its nonheme iron center, and a large H/D kinetic isotope effect (KIE) has been found in the hydrogen atom transfer (HAT) of taurine suggesting a large tunneling effect. Recently, highly electrophilic Fe(III)-oxyl radicals have been proposed as a key species for HAT in the catalytic mechanism of C–H activation, which might be prepared prior to the actual HAT. In order to investigate this hypothesis and large tunneling effect, DFT potential energy surfaces along the intrinsic reaction path were generated. The predicted rate constants and H/D KIEs using variational transition-state theory including multidimensional tunneling, based on these potential surfaces, have excellent agreement with experimental data. This study revealed that the reactive processes of C–H activation consisted of two distinguishable parts: (1) the substrate approaching the Fe(IV)-oxo center without C–H bond cleavage, which triggers the catalytic process by inducing metal-to-ligand charge transfer to form the Fe(III)-oxyl species, and (2) the actual HAT from the substrate to the Fe(III)-oxyl species. Most of the activation energy was used in the first part, and the actual HAT required only a small amount of energy to overcome the TS with a very large tunneling effect. The donor–acceptor interaction between σC–H and σ*Fe–O orbitals reduced the activation energy significantly to make C–H activation feasible.

  8. Is It Fe(III)-Oxyl Radical That Abstracts Hydrogen in the C-H Activation of TauD? A Theoretical Study Based on the DFT Potential Energy Surfaces.

    PubMed

    Mai, Binh Khanh; Kim, Yongho

    2016-04-18

    Taurine:α-ketoglutarate dioxygenase (TauD) is one of the most important enzymes in the α-ketoglutarate dioxygenase family, which are involved in many important biochemical processes. TauD converts taurine into amino acetaldehyde and sulfite at its nonheme iron center, and a large H/D kinetic isotope effect (KIE) has been found in the hydrogen atom transfer (HAT) of taurine suggesting a large tunneling effect. Recently, highly electrophilic Fe(III)-oxyl radicals have been proposed as a key species for HAT in the catalytic mechanism of C–H activation, which might be prepared prior to the actual HAT. In order to investigate this hypothesis and large tunneling effect, DFT potential energy surfaces along the intrinsic reaction path were generated. The predicted rate constants and H/D KIEs using variational transition-state theory including multidimensional tunneling, based on these potential surfaces, have excellent agreement with experimental data. This study revealed that the reactive processes of C–H activation consisted of two distinguishable parts: (1) the substrate approaching the Fe(IV)-oxo center without C–H bond cleavage, which triggers the catalytic process by inducing metal-to-ligand charge transfer to form the Fe(III)-oxyl species, and (2) the actual HAT from the substrate to the Fe(III)-oxyl species. Most of the activation energy was used in the first part, and the actual HAT required only a small amount of energy to overcome the TS with a very large tunneling effect. The donor–acceptor interaction between σC–H and σ*Fe–O orbitals reduced the activation energy significantly to make C–H activation feasible. PMID:27031914

  9. Electronic Absorption Spectra of Tetrapyrrole-Based Pigments via TD-DFT: A Reduced Orbital Space Study.

    PubMed

    Shrestha, Kushal; Virgil, Kyle A; Jakubikova, Elena

    2016-07-28

    Tetrapyrrole-based pigments play a crucial role in photosynthesis as principal light absorbers in light-harvesting chemical systems. As such, accurate theoretical descriptions of the electronic absorption spectra of these pigments will aid in the proper description and understanding of the overall photophysics of photosynthesis. In this work, time-dependent density functional theory (TD-DFT) at the CAM-B3LYP/6-31G* level of theory is employed to produce the theoretical absorption spectra of several tetrapyrrole-based pigments. However, the application of TD-DFT to large systems with several hundreds of atoms can become computationally prohibitive. Therefore, in this study, TD-DFT calculations with reduced orbital spaces (ROSs) that exclude portions of occupied and virtual orbitals are pursued as a viable, computationally cost-effective alternative to conventional TD-DFT calculations. The effects of reducing orbital space size on theoretical spectra are qualitatively and quantitatively described, and both conventional and ROS results are benchmarked against experimental absorption spectra of various tetrapyrrole-based pigments. The orbital reduction approach is also applied to a large natural pigment assembly that comprises the principal light-absorbing component of the reaction center in purple bacteria. Overall, we find that TD-DFT calculations with proper and judicious orbital space reductions can adequately reproduce conventional, full orbital space, TD-DFT results of all pigments studied in this work.

  10. Synthesis, characterization, and DFT studies of a new chiral ionic liquid from (S)-1-phenylethylamine

    NASA Astrophysics Data System (ADS)

    Cui, Shuya; Wang, Tao; Hu, Xiaoli

    2014-12-01

    A new chiral ionic liquid was synthesized from (S)-1-phenylethylamine and it was studied by IR, Raman, polarimetry, NMR and X-ray crystal diffraction. Its vibrational spectral bands are precisely ascribed to the studied structure with the aid of DFT theoretical calculations. The optimized geometries and calculated vibrational frequencies are evaluated via comparison with experimental values. The vibrational spectral data obtained from IR and Raman spectra are assigned based on the results of the theoretical calculations by the DFT-B3LYP method at 6-311G(d,p) level. The computed vibrational frequencies were scaled by scale factors to yield a good agreement with observed experimental vibrational frequencies. The vibrational modes assignments were performed by using the animation option of GaussView5.0 graphical interface for Gaussian program.

  11. Synthesis, characterization, and DFT studies of a new chiral ionic liquid from (S)-1-phenylethylamine.

    PubMed

    Cui, Shuya; Wang, Tao; Hu, Xiaoli

    2014-12-10

    A new chiral ionic liquid was synthesized from (S)-1-phenylethylamine and it was studied by IR, Raman, polarimetry, NMR and X-ray crystal diffraction. Its vibrational spectral bands are precisely ascribed to the studied structure with the aid of DFT theoretical calculations. The optimized geometries and calculated vibrational frequencies are evaluated via comparison with experimental values. The vibrational spectral data obtained from IR and Raman spectra are assigned based on the results of the theoretical calculations by the DFT-B3LYP method at 6-311G(d,p) level. The computed vibrational frequencies were scaled by scale factors to yield a good agreement with observed experimental vibrational frequencies.The vibrational modes assignments were performed by using the animation option of GaussView5.0 graphical interface for Gaussian program. PMID:25000565

  12. Vibrational spectroscopic studies and DFT calculations of 4-aminoantipyrine

    NASA Astrophysics Data System (ADS)

    Swaminathan, J.; Ramalingam, M.; Sethuraman, V.; Sundaraganesan, N.; Sebastian, S.

    2009-08-01

    The pyrazole derivative, 4-aminoantipyrine (4AAP), used as an intermediate for the synthesis of pharmaceuticals especially antipyretic and analgesic drugs has been analyzed experimentally and theoretically for its vibrational frequencies. The FTIR and FT Raman spectra of the title compound have been compared with the theoretically computed frequencies invoking the standard 6-311g(d,p) and cc-pVDZ basis sets at DFT level of theory (B3LYP). The harmonic vibrational frequencies at B3LYP/cc-pVDZ after appropriate scaling method seem to coincide satisfactorily with the experimental observations rather than B3LYP/6-311g(d,p) results. The theoretical spectrograms for FT-IR and FT-Raman spectra of 4AAP have been also constructed and compared with the experimental spectra. Additionally, thermodynamic data have also been calculated and discussed.

  13. Ferrocene-isocoumarin conjugated molecules: synthesis, structural characterization, electronic properties, and DFT-TDDFT computational study.

    PubMed

    Peng, Ye-Dong; Zhou, Lin-Sen; Chen, Li-Li; Ma, Lu; Zhao, Yue; Zhang, Wen-Wei; Zuo, Jing-Lin

    2015-08-28

    Two ferrocene-isocoumarin conjugated molecules, methyl 3-ferrocenyl-1-oxo-1H-isochromene-6-carboxylate () and 3,8-bisferrocenylpyrano[3,4-g]isochromene-1,6-dione (), have been synthesized through the acid-prompted regioselective oxidative cyclization from dimethyl 2-(ferrocenylethynyl)terephthalate () and dimethyl 2,5-bis(ferrocenylethynyl)terephthalate (), respectively. Single-crystal X-ray diffraction, together with the density functional theory (DFT) calculations, shows that the ferrocene-isocoumarin conjugated compounds display better coplanarity than the corresponding ferrocenylethynyl terephthalates. All the compounds exhibit characteristic MLCT, ICT and π-π* transitions in the UV-visible range in solution, and and show higher oscillator strength of the absorption than and , which are verified by time-dependent DFT (TDDFT) theoretical calculations. The electrochemical properties are studied by cyclic voltammetry (CV), which are also in accord with the theoretical calculations.

  14. [IR and Raman spectra studies of Rotundine based on DFT].

    PubMed

    Li, Jun-Ping; Zhou, Guang-Ming; Zhang, Li-Jun; Cheng, Hong-Mei; Qin, Hong-Ying

    2014-11-01

    Infrared spectroscopy (IR), the normal Raman spectroscopy (NRS) and the surface enhanced Raman spectroscopy (SERS) in new Ag/Cu nanomaterial of Rotundine were studied in the present paper. The IR and the NRS of Rotundine were calculated by the density functional theory (DFT) using B3LYP/6-311+G(d, p), then the spectral intensity graph of Rotundine were given. The vibrational peaks were assigned comprehensively by the visualization software of Gauss view 5. 0. Rotundine has obvious infrared and Raman vibrational peak in the wave number range of 3 300-2500 and 1 800-600 cm(-1). SnCl2 and PVP was used as capping agent for the silver nanoparticles in SERS of Rotundine. Finally, by using the method of cyclic immersion well dispersed silver nanoparticles was obtained and achieved good enhancement effect. This molecule acquired strong selective enhancement vibration peak, In the wave number ranges of 1 500-1 400 and 1 000-700 cm(-1) the enhancement effect is most obvious. After analyzed, the methylene of this molecule is adsorbed on the silver nanoparticles surface and the angle between the benzene ring and the silver substrate is close to 90 degrees. The theoretically calculated spectra of Rotundine are consistent with the obtained experimental spectra. There are some differences may be due to the interaction forces between molecules and so on. The visualization software displayed the structure characteristics and molecular group vibration of this molecular visually and provided important basis for assigning the vibrational peaks. Rotundine is an important traditional Chinese medicine agent contained in many kinds of sedative drugs. The study provides a strong basis for the rapid, feature and trace identification of Rotundine and also supplies important reference for the biological role of central inhibition of analgesic drugs. PMID:25752044

  15. Charge transfer properties of pentacene adsorbed on silver: DFT study

    SciTech Connect

    N, Rekha T.; Rajkumar, Beulah J. M.

    2015-06-24

    Charge transfer properties of pentacene adsorbed on silver is investigated using DFT methods. Optimized geometry of pentacene after adsorption on silver indicates distortion in hexagonal structure of the ring close to the silver cluster and deviations in co-planarity of carbon atoms due to the variations in bond angles and dihedral angles. Theoretically simulated absorption spectrum has a symmetric surface plasmon resonance peak around 486nm corresponding to the transfer of charge from HOMO-2 to LUMO. Theoretical SERS confirms the process of adsorption, tilted orientation of pentacene on silver surface and the charge transfers reported. Localization of electron density arising from redistribution of electrostatic potential together with a reduced bandgap of pentacene after adsorption on silver suggests its utility in the design of electro active organic semiconducting devices.

  16. DFT/TD-DFT study of solvent effect as well the substituents influence on the different features of TPP derivatives for PDT application

    NASA Astrophysics Data System (ADS)

    Dulski, Mateusz; Kempa, Marta; Kozub, Patrycja; Wójcik, Justyna; Rojkiewicz, Marcin; Kuś, Piotr; Szurko, Agnieszka; Ratuszna, Alicja; Wrzalik, Roman

    2013-03-01

    Spectral characteristics study of meso-tetraphenylporphyrin derivatives (TPP1 and TPP2) used as photosensitizers for utilization in photodynamic therapy (PDT) has been performed by density functional theory (DFT) and time dependent DFT (TD-DFT) calculations at B3LYP/6-31G(d) level of theory using PCM solvation model. The geometrical parameters of porphyrins have been studied for ground and excited-state geometry to deduce the influence of various substituents as well as solvent effect on the deformation of porphyrin ring. Two theoretical approaches - linear response (LR) and external iteration (EI) - have been performed to replicate absorption and fluorescence emission spectra. Experimental and theoretical investigations have shown that EI method reproduces the absorption energies very well for both singlet-singlet and triplet-triplet transitions, whereas the LR approach is more coherent with experimental fluorescence emission spectra. Spectral features and HOMO-LUMO band gap analysis have shown that TPP1 can be more useful in PDT. Calculations have revealed that two the highest occupied and two the lowest unoccupied molecular orbitals are responsible for the Q-band absorption and are located mainly on the porphyrin ring. In order to verify the substituent effect on the activity of tested compounds in their ground and excited states, the molecular electrostatic potential surfaces have been analyzed.

  17. Physicochemical studies of chemosensor imidazole derivatives: DFT based ESIPT process

    NASA Astrophysics Data System (ADS)

    Jayabharathi, Jayaraman; Thanikachalam, Venugopal; Jayamoorthy, Karunamoorthy

    2012-04-01

    A series of substituted imidazoles have been synthesized in very good yield under a solvent free condition using molecular iodine as the catalyst. An excited state intramolecular proton transfer (ESIPT) process in hydroxy imidazole has been studied using emission spectroscopy. DFT calculations on energy, dipole moment, charge distribution of the rotamers in the ground and excited states of the imidazole derivatives have been performed and discussed. DFT analysis about HOMO, HOMO-1, LUMO and LUMO+1 has been carried out and discussed. The energy barrier for the interconversion of two rotamers is too high in the excited state than the ground state that is shown by PES calculation. The molecular electrostatic potential surface (MEP) has also been employed to show the higher electron density at N(3) nitrogen. Fluorescence enhancement has been found in the presence of transition metal ions and this may result from the suppression of radiationless transitions from the n-π* state in the chemosensors.

  18. Experimental and DFT computational studies of L-alanine cadmium chloride crystals

    NASA Astrophysics Data System (ADS)

    Ignatius, I. Cicili; Dheivamalar, S.; Kirubavathi, K.; Selvaraju, K.

    2016-05-01

    In this work, we report the combined experimental and theoretical study on molecular structure and vibrational spectra of nonlinear optical crystal L-alanine cadmium chloride (LACC). The single X-ray diffraction studies have revealed that the compound crystallizes in monoclinic system C2 space group with cell parameters a = 16.270, b = 7.358, c = 7.887 and Z = 4. FTIR and Raman spectra of the nonlinear optical materials LACC have been recorded and analyzed. The optimized geometric bond length and bond angles are obtained with the help of density functional theory (DFT) (B3LYP) calculation. The optimized geometric bond lengths and bond angles obtained by using DFT show good agreement with the experimental data. Using the natural bond orbital analysis the electronic effect and hydrogen bonding were confirmed. The HOMO-LUMO energy gap and the first order hyperpolarizability were calculated and it supports the nonlinear optical activity of LACC crystal.

  19. Electronic structure and mesoscopic simulations of nonylphenol ethoxylate surfactants. a combined DFT and DPD study.

    PubMed

    Valencia, Diego; Aburto, Jorge; García-Cruz, Isidoro

    2013-08-07

    The aim of this work was to gain insight into the effect of ethylene oxide (EO) chains on the properties of a series of nonylphenol ethoxylate (NPE) surfactants. We performed a theoretical study of NPE surfactants by means of density functional theory (DFT) and dissipative particle dynamics (DPD). Both approximations were used separately to obtain different properties. Four NPEs were selected for this purpose (EO = 4, 7, 11 and 15 length chains). DFT methods provided some electronic properties that are related to the EO units. One of them is the solvation Gibbs energy, which exhibited a linear trend with EO chain length. DPD calculations allow us to observe the dynamic behavior in water of the NPE surfactants. We propose a coarse-grained model which properly simulates the mesophases of each surfactant. This model can be used in other NPEs applications.

  20. Dissociation curves of diatomic molecules: A DC-DFT study

    SciTech Connect

    Sim, Eunji; Kim, Min-Cheol; Burke, Kieron

    2015-12-31

    We investigate dissociation of diatomic molecules using standard density functional theory (DFT) and density-corrected density functional theory (DC-DFT) compared with CCSD(T) results as reference. The results show the difference between the HOMO values of dissociated atomic species often can be used as an indicator whether DFT would predict the correct dissociation limit. DFT predicts incorrect dissociation limits and charge distribution in molecules or molecular ions when the fragments have large HOMO differences, while DC-DFT and CCSD(T) do not. The criteria for large HOMO difference is about 2 ∼ 4 eV.

  1. Adsorption of silver dimer on graphene - A DFT study

    SciTech Connect

    Kaur, Gagandeep; Gupta, Shuchi; Rani, Pooja; Dharamvir, Keya

    2014-04-24

    We performed a systematic density functional theory (DFT) study of the adsorption of silver dimer (Ag{sub 2}) on graphene using SIESTA (Spanish Initiative for Electronic Simulations with Thousands of Atoms) package, in the generalized gradient approximation (GGA). The adsorption energy, geometry, and charge transfer of Ag2-graphene system are calculated. The minimum energy configuration for a silver dimer is parallel to the graphene sheet with its two atoms directly above the centre of carbon-carbon bond. The negligible charge transfer between the dimer and the surface is also indicative of a weak bond. The methodology demonstrated in this paper may be applied to larger silver clusters on graphene sheet.

  2. Hydrogen molecule on lithium adsorbed graphene: A DFT study

    NASA Astrophysics Data System (ADS)

    Kaur, Gagandeep; Gupta, Shuchi; Gaganpreet, Dharamvir, Keya

    2016-05-01

    Electronic structure calculations for the adsorption of molecular hydrogen on lithium (Li) decorated and pristine graphene have been studied systematically using SIESTA code [1] within the framework of the first-principle DFT under the Perdew-Burke-Ernzerhof (PBE) form of the generalized gradient approximation (GGA)[2], including spin polarization. The energy of adsorption of hydrogen molecule on graphene is always enhanced by the presence of co-adsorbed lithium. The most efficient adsorption configuration is when H2 is lying parallel to lithium adsorbed graphene which is in contrast to its adsorption on pristine graphene (PG) where it prefers perpendicular orientation.

  3. Computational study of AuSin (n=1-9) nanoalloy clusters invoking DFT based descriptors

    NASA Astrophysics Data System (ADS)

    Ranjan, Prabhat; Kumar, Ajay; Chakraborty, Tanmoy

    2016-04-01

    Nanoalloy clusters formed between Au and Si are topics of great interest today from both scientific and technological point of view. Due to its remarkable catalytic, electronic, mechanical and magnetic properties Au-Si nanoalloy clusters have extensive applications in the field of microelectronics, catalysis, biomedicine, and jewelry industry. Density Functional Theory (DFT) is a new paradigm of quantum mechanics, which is very much popular to study the electronic properties of materials. Conceptual DFT based descriptors have been invoked to correlate the experimental properties of nanoalloy clusters. In this venture, we have systematically investigated AuSin (n=1-9) nanoalloy clusters in the theoretical frame of the B3LYP exchange correlation. The experimental properties of AuSin (n=1-9) nanoalloy clusters are correlated in terms of DFT based descriptors viz. HOMO-LUMO gap, Electronegativity (χ), Global Hardness (η), Global Softness (S) and Electrophilicity Index (ω). The calculated HOMO-LUMO gap exhibits interesting odd-even alteration behaviour, indicating that even numbered clusters possess higher stability as compare to their neighbour odd numbered clusters. This study also reflects a very well agreement between experimental bond length and computed data.

  4. Iodine adsorption on Ni(111): STM and DFT study

    NASA Astrophysics Data System (ADS)

    Komarov, N. S.; Pavlova, T. V.; Andryushechkin, B. V.

    2016-09-01

    Iodine adsorption on the Ni(111) surface has been studied in ultra-high vacuum conditions with scanning tunneling microscopy (STM), Auger electron spectroscopy (AES), low-energy electron diffraction (LEED) and density functional theory (DFT) calculations. At the first stage of adsorption, iodine was found to form a simple commensurate (√{ 3 } ×√{ 3 }) R 30∘ structure at the coverage of 0.33 ML. According to DFT calculations, all iodine atoms in the (√{ 3 } ×√{ 3 }) R 30∘ structure occupy fcc hollow sites. Increase of the coverage in the range of (0.333 ML <θ < 0.364 ML) results in the uniaxial compression of the iodine lattice and the formation of the high-order commensurate structure (11 ×√{ 3 } R 30∘). The mechanism of compression involves the formation and the development of the striped super-heavy domain wall network. Further iodine dosing gives rise to nucleation and growth of flat 2D islands of surface nickel iodide. Atomic resolution STM images of iodide islands, in addition to atomic modulation, exhibit clear visible moiré-like superstructures with a period about 26 Å. The origin of the moiré-patterns was explained by the incommensurability of lattices of the surface nickel iodide and underlying Ni(111).

  5. DFT study on a fullerene doped with Si and N

    NASA Astrophysics Data System (ADS)

    Beigi, Hossein Shirani IL

    2013-09-01

    DFT calculations are applied for some stable C60, C59Si, and C59N hetero fullerenes. Sn and Ge atoms are doped at the same position of C60. Computations are carried out at the B3LYP/cc pVDZ levels. In this work the effects of the heteroatoms, Si and N, on the structural properties of the fullerene have been studied. The structure, energetic and relative stabilities of the compounds were compared and analyzed with each other. In addition, vibrations spectra of proposed stable neutral species, as well as the infrared intensities are calculated. From the data obtained from calculation, we found that there is strong correlation between the stability of pure C60 fullerene molecule and the numbers of different C-C bonds.

  6. Theoretical Study of OH Reaction with Toluene

    NASA Astrophysics Data System (ADS)

    Suh, I.; Zhang, D.; Zhang, R.; Molina, L. T.; Molina, M. J.

    2001-12-01

    Aromatic hydrocarbons constitute a major faction of total volatile organic compounds (VOCs) in the urban and regional atmosphere, and are emitted primarily from anthropogenic sources, i.e. emission from automobiles, fuel-based vehicles, and industry. In addition to their important role in gas-phase chemistry of urban air pollution, oxidation of aromatic hydrocarbons leads to formation of various non-volatile and semi-volatile organic compounds, which are responsible for the formation of secondary organic aerosols. Toluene is the most abundant aromatic hydrocarbon. Reactions of toluene in the atmosphere are mainly initiated by attack from hydroxyl radical OH. In this study, we report a theoretical study of the reaction of toluene with OH. Density functional theory (DFT) and ab initio calculations have been employed to investigate the OH-toluene adduct isomers. The geometries and energetics of the four isomers of the OH-toluene adduct radicals as well as their corresponding transition states are presented. The DFT and ab initio theories applicable to the OH-toluene reaction system are evaluated. We also present calculations of the rate constants and isomeric branching ratios of the formation of the OH-toluene adduct isomers.

  7. Theoretical studies of photosynthesis

    SciTech Connect

    Thompson, M.A.

    1990-01-01

    The conversion of light energy to chemical energy by the process of photosynthetic charge separation is one of the most important chemical transformation for life on this planet. With the atomic level structures of photosynthetic reaction centers (RC) for some bacteria now known, one can attempt to attain a more complete understanding of the properties and mechanisms of these systems. In this dissertation theoretical studies on both monomeric bacteriochlorophylls (BChl) and aggregates of these related pigments representing models of the RC are presented. Models for the effects of nearby charged and polar groups on monomeric BChls and how these relate to spectroscopic shifts in the absorption spectrum of the RC are discussed. The calculated properties of the BChl dimer or special pair is best described in terms of a dimer of strongly interacting BChl monomers rather than the more traditional coupled chromophore model. That this BChl dimer is responsible for the lowest absorption band in the UV/vis spectrum of RCs is well described by these results. A description of these interactions in the BChl dimer is presented using a simpler model system composed of Mg-bacteriochlorin dimers. A model of the RC consisting of the four BChlbs and two bacteriopheophytins as well as some of the surrounding amino acids of the RC protein is sufficient to give a reasonable description of the calculated UV/vis spectrum of the RC. These results show that the lowest two excited states of the RC are attributed to the BChl dimer. This strengthens the identification of the second lowest excited state with the shoulder seen at 850 nm in experimental spectra as the upper exciton-like component of the BChl dimer. Charge transfer (CT) states are calculated and demonstrate the preference for flow of charge in the RC along only one of its branches.

  8. HCOOH decomposition on Pt(111): A DFT study

    NASA Astrophysics Data System (ADS)

    Scaranto, Jessica; Mavrikakis, Manos

    2016-06-01

    Formic acid (HCOOH) decomposition on transition metal surfaces is important for hydrogen production and for its electro-oxidation in direct HCOOH fuel cells. HCOOH can decompose through dehydrogenation leading to formation of CO2 and H2 or dehydration leading to CO and H2O; because CO can poison metal surfaces, dehydrogenation is typically the desirable decomposition path. Here we report a mechanistic analysis of HCOOH decomposition on Pt(111), obtained from a plane wave density functional theory (DFT-PW91) study. We analyzed the dehydrogenation mechanism by considering the two possible pathways involving the formate (HCOO) or the carboxyl (COOH) intermediate. We also considered several possible dehydration paths leading to CO formation. We studied HCOO and COOH decomposition both on the clean surface and in the presence of other relevant co-adsorbates. The results suggest that COOH formation is energetically more difficult than HCOO formation. In contrast, COOH dehydrogenation is easier than HCOO decomposition. We found that CO2 is the main product through both pathways and that CO is produced mainly through the dehydroxylation of the COOH intermediate.

  9. Palladium dimers adsorbed on graphene: A DFT study

    SciTech Connect

    Kaur, Gagandeep; Gupta, Shuchi; Dharamvir, Keya

    2015-05-15

    The 2D structure of graphene shows a great promise for enhanced catalytic activity when adsorbed with palladium. We performed a systematic density functional theory (DFT) study of the adsorption of palladium dimer (Pd{sub 2}) on graphene using SIESTA package, in the generalized gradient approximation (GGA). The adsorption energy, geometry, and charge transfer of Pd{sub 2}-graphene system are calculated. Both horizontal and vertical orientations of Pd{sub 2} on graphene are studied. Our calculations revealed that the minimum energy configuration for Pd dimer is parallel to the graphene sheet with its two atoms occupying centre of adjacent hexagonal rings of graphene sheet. Magnetic moment is induced for Pd dimer adsorbed on graphene in vertical orientation while horizontal orientation of Pd dimer on graphene do not exhibit magnetism. Insignificant energy differences among adsorption sites means that dimer mobility on the graphene sheet is high. There is imperceptible distortion of graphene sheet perpendicular to its plane. However, some lateral displacements are seen.

  10. Using DFT Methods to Study Activators in Optical Materials

    SciTech Connect

    Du, Mao-Hua

    2015-08-17

    Density functional theory (DFT) calculations of various activators (ranging from transition metal ions, rare-earth ions, ns2 ions, to self-trapped and dopant-bound excitons) in phosphors and scintillators are reviewed. As a single-particle ground-state theory, DFT calculations cannot reproduce the experimentally observed optical spectra, which involve transitions between multi-electronic states. However, DFT calculations can generally provide sufficiently accurate structural relaxation and distinguish different hybridization strengths between an activator and its ligands in different host compounds. This is important because the activator-ligand interaction often governs the trends in luminescence properties in phosphors and scintillators, and can be used to search for new materials. DFT calculations of the electronic structure of the host compound and the positions of the activator levels relative to the host band edges in scintillators are also important for finding optimal host-activator combinations for high light yields and fast scintillation response. Mn4+ activated red phosphors, scintillators activated by Ce3+, Eu2+, Tl+, and excitons are shown as examples of using DFT calculations in phosphor and scintillator research.

  11. Using DFT Methods to Study Activators in Optical Materials

    DOE PAGESBeta

    Du, Mao-Hua

    2015-08-17

    Density functional theory (DFT) calculations of various activators (ranging from transition metal ions, rare-earth ions, ns2 ions, to self-trapped and dopant-bound excitons) in phosphors and scintillators are reviewed. As a single-particle ground-state theory, DFT calculations cannot reproduce the experimentally observed optical spectra, which involve transitions between multi-electronic states. However, DFT calculations can generally provide sufficiently accurate structural relaxation and distinguish different hybridization strengths between an activator and its ligands in different host compounds. This is important because the activator-ligand interaction often governs the trends in luminescence properties in phosphors and scintillators, and can be used to search for new materials.more » DFT calculations of the electronic structure of the host compound and the positions of the activator levels relative to the host band edges in scintillators are also important for finding optimal host-activator combinations for high light yields and fast scintillation response. Mn4+ activated red phosphors, scintillators activated by Ce3+, Eu2+, Tl+, and excitons are shown as examples of using DFT calculations in phosphor and scintillator research.« less

  12. Surface structures and thermodynamics of low-index of rutile, brookite and anatase - A comparative DFT study

    NASA Astrophysics Data System (ADS)

    Esch, Tobit R.; Gadaczek, Immanuel; Bredow, Thomas

    2014-01-01

    Titania surfaces have been studied theoretically and experimentally for many decades due to their photocatalytic properties. In this paper we present a theoretical study where we compare the low-index surfaces of rutile, anatase and brookite in terms of their stability and relaxation. The convergence behavior with the number of layers is analyzed with large all-electron basis sets and a hybrid DFT method (PW1PW). With this method a good agreement with recent experimental results for the surface relaxation is achieved. Frequency calculations for all considered surfaces were performed to obtain surface enthalpies and analyze the stability of the 1 × 1 surface-patterns.

  13. Vibrational and structural study of onopordopicrin based on the FTIR spectrum and DFT calculations.

    PubMed

    Chain, Fernando E; Romano, Elida; Leyton, Patricio; Paipa, Carolina; Catalán, César A N; Fortuna, Mario; Brandán, Silvia Antonia

    2015-11-01

    In the present work, the structural and vibrational properties of the sesquiterpene lactone onopordopicrin (OP) were studied by using infrared spectroscopy and density functional theory (DFT) calculations together with the 6-31G(∗) basis set. The harmonic vibrational wavenumbers for the optimized geometry were calculated at the same level of theory. The complete assignment of the observed bands in the infrared spectrum was performed by combining the DFT calculations with Pulay's scaled quantum mechanical force field (SQMFF) methodology. The comparison between the theoretical and experimental infrared spectrum demonstrated good agreement. Then, the results were used to predict the Raman spectrum. Additionally, the structural properties of OP, such as atomic charges, bond orders, molecular electrostatic potentials, characteristics of electronic delocalization and topological properties of the electronic charge density were evaluated by natural bond orbital (NBO), atoms in molecules (AIM) and frontier orbitals studies. The calculated energy band gap and the chemical potential (μ), electronegativity (χ), global hardness (η), global softness (S) and global electrophilicity index (ω) descriptors predicted for OP low reactivity, higher stability and lower electrophilicity index as compared with the sesquiterpene lactone cnicin containing similar rings. PMID:26057092

  14. SERS and DFT study of p-hydroxybenzoic acid adsorbed on colloidal silver particles.

    PubMed

    Chen, Y; Chen, S J; Li, S; Wei, J J

    2015-01-01

    In this study, normal Raman spectra of p—hydroxybenzoic acid (PHBA) powder and its surface—enhanced Raman scattering (SERS) spectra in silver colloidal solutions were measured under near infrared excitation conditions. In theoretical calculation, two models of PHBA adsorbed on the surfaces of silver nanoparticles were established. The Raman frequencies of these two models using density functional theory (DFT) method were calculated, and compared with the experimental results. It was found that the calculated Raman frequencies were in good agreement with experimental values, which indicates that there are two enhanced mechanism physical (electromagnetic, EM) enhancement and chemical (charge—transfer, CT) enhancement, in silver colloidal solutions regarding SERS effect. Furthermore, from high—quality SERS spectrum of PHBA obtained in silver colloids, we inferred that PHBA molecules in silver colloids adsorb onto the metal surfaces through carboxyl at a perpendicular orientation. The combination of SERS spectra and DFT calculation is thus useful for studies of the adsorption—orientation of a molecule on a metal colloid. PMID:26475382

  15. Vibrational spectroscopic analysis of aluminum phthalocyanine chloride. experimental and DFT study

    NASA Astrophysics Data System (ADS)

    Soliman, I. M.; El-Nahass, M. M.; Eid, Kh. M.; Ammar, H. Y.

    2016-06-01

    In this work, we report a combined experimental and theoretical study of aluminum phthalocyanine chloride (AlPcCl). The FT-IR and Raman spectra of AlPcCl were recorded and analyzed. The density functional theory (DFT) computations have been performed at B3LYP/6-31g and B3LYP/6-311g to derive equilibrium geometry, vibrational wavenumbers, intensity and NLO properties. All the observed vibrational bands have been discussed and assigned to normal mode or to combinations on the basis of our DFT calculations as a primary source of attribution and also by comparison with the previous results for similar compounds. The natural bond orbital (NBO) calculations were performed to study the atomic charge distribution of the investigated compound. The calculated results showed that dipole moment of the investigated compound was 4.68 Debye and HOMO-LUMO energy gap was 2.14 eV. The lowering of frontier orbital gap appears to be the cause of its enhanced charge transfer interaction.

  16. Vibrational spectroscopic properties of hydrogen bonded acetonitrile studied by DFT.

    PubMed

    Alía, Jose M; Edwards, Howell G M

    2005-09-01

    Vibrational properties (band position, Infrared and Raman intensities) of the acetonitrile C[triple bond]N stretching mode were studied in 27 gas-phase medium intensity (length range: = 1.71-2.05 angstroms; -deltaE range = 13-48 kJ/mol) hydrogen-bonded 1:1 complexes of CH3CN with organic and inorganic acids using density functional theory (DFT) calculations [B3LYP-6-31++G(2d,2p)]. Furthermore, general characteristics of the hydrogen bonds and vibrational changes in the OH stretching band of the acids were also considered. Experimentally observed blue-shifts of the C[triple bond]N stretching band promoted by the hydrogen bonding, which shortens the triple bond length, are very well reproduced and quantitatively depend on the hydrogen bond length. Both predicted enhancement of the infrared and Raman nu(C[triple bond]N) band intensities are in good agreement with the experimental results. Infrared band intensity increase is a direct function of the hydrogen bond energy. However, the predicted increase in the Raman band intensity increase is a more complex function, depending simultaneously on the characteristics of both the hydrogen bond (C[triple bond]N bond length) and the H-donating acid polarizability. Accounting for these two parameters, the calculated nu(C[triple bond]N) Raman intensities of the complexes are explained with a mean error of +/- 2.4%.

  17. DFT calculation and vibrational spectroscopic studies of 2-(tert-butoxycarbonyl (Boc) -amino)-5-bromopyridine.

    PubMed

    Premkumar, S; Jawahar, A; Mathavan, T; Kumara Dhas, M; Sathe, V G; Milton Franklin Benial, A

    2014-08-14

    The molecular structure of 2-(tert-butoxycarbonyl (Boc) -amino)-5-bromopyridine (BABP) was optimized by the DFT/B3LYP method with 6-311G (d,p), 6-311++G (d,p) and cc-pVTZ basis sets using the Gaussian 09 program. The most stable optimized structure of the molecule was predicted by the DFT/B3LYP method with cc-pVTZ basis set. The vibrational frequencies, Mulliken atomic charge distribution, frontier molecular orbitals and thermodynamical parameters were calculated. These calculations were done at the ground state energy level of BABP without applying any constraint on the potential energy surface. The vibrational spectra were experimentally recorded using Fourier Transform-Infrared (FT-IR) and micro-Raman spectrometer. The computed vibrational frequencies were scaled by scale factors to yield a good agreement with observed experimental vibrational frequencies. The complete theoretically calculated and experimentally observed vibrational frequencies were assigned on the basis of Potential Energy Distribution (PED) calculation using the VEDA 4.0 program. The vibrational modes assignments were performed by using the animation option of GaussView 05 graphical interface for Gaussian program. The Mulliken atomic charge distribution was calculated for BABP molecule. The molecular reactivity and stability of BABP were also studied by frontier molecular orbitals (FMOs) analysis. PMID:24727165

  18. DFT calculation and vibrational spectroscopic studies of 2-(tert-butoxycarbonyl (Boc) -amino)-5-bromopyridine

    NASA Astrophysics Data System (ADS)

    Premkumar, S.; Jawahar, A.; Mathavan, T.; Kumara Dhas, M.; Sathe, V. G.; Milton Franklin Benial, A.

    2014-08-01

    The molecular structure of 2-(tert-butoxycarbonyl (Boc) -amino)-5-bromopyridine (BABP) was optimized by the DFT/B3LYP method with 6-311G (d,p), 6-311++G (d,p) and cc-pVTZ basis sets using the Gaussian 09 program. The most stable optimized structure of the molecule was predicted by the DFT/B3LYP method with cc-pVTZ basis set. The vibrational frequencies, Mulliken atomic charge distribution, frontier molecular orbitals and thermodynamical parameters were calculated. These calculations were done at the ground state energy level of BABP without applying any constraint on the potential energy surface. The vibrational spectra were experimentally recorded using Fourier Transform-Infrared (FT-IR) and micro-Raman spectrometer. The computed vibrational frequencies were scaled by scale factors to yield a good agreement with observed experimental vibrational frequencies. The complete theoretically calculated and experimentally observed vibrational frequencies were assigned on the basis of Potential Energy Distribution (PED) calculation using the VEDA 4.0 program. The vibrational modes assignments were performed by using the animation option of GaussView 05 graphical interface for Gaussian program. The Mulliken atomic charge distribution was calculated for BABP molecule. The molecular reactivity and stability of BABP were also studied by frontier molecular orbitals (FMOs) analysis.

  19. A DFT Study of Pyrrole-Isoxazole Derivatives as Chemosensors for Fluoride Anion

    PubMed Central

    Jin, Ruifa; Sun, Weidong; Tang, Shanshan

    2012-01-01

    The interactions between chemosensors, 3-amino-5-(4,5,6,7-tetrahydro-1H-indol-2-yl)isoxazole-4-carboxamide (AIC) derivatives, and different anions (F− Cl−, Br−, AcO−, and H2PO4−) have been theoretically investigated using DFT approaches. It turned out that the unique selectivity of AIC derivatives for F− is ascribed to their ability of deprotonating the host sensors. Frontier molecular orbital (FMO) analyses have shown that the vertical electronic transitions of absorption and emission for the sensing signals are characterized as intramolecular charge transfer (ICT). The study of substituent effects suggests that all the substituted derivatives are expected to be promising candidates for fluoride chemosensors both in UV-vis and fluorescence spectra except for derivative with benzo[d]thieno[3,2-b]thiophene fragment that can serve as ratiometric fluorescent fluoride chemosensor only. PMID:23109833

  20. DFT study of adsorption of CO2 on palladium cluster doped by transition metal

    NASA Astrophysics Data System (ADS)

    Saputro, A. G.; Agusta, M. K.; Wungu, T. D. K.; Suprijadi; Rusydi, F.; Dipojono, H. K.

    2016-08-01

    We report on a theoretical study of CO2 adsorption on Pd6-M (M: Ni, Cu, Pt, Rh) cluster using first-principles density functional theory (DFT) calculations. We find that CO2 molecule is adsorbed with a bidendate configuration on Pd7 and on most of Pd6M clusters. The bidendate adsorption configuration is formed due to the filling of the unoccupied n* orbital of CO2 molecule upon its interaction with d-orbitals of the cluster. We find that transition metal doping could modify the adsorption energy, adsorption site and adsorption configuration of CO2 molecule on Pd7 cluster. We also predict that the usage of Pd6M clusters as CO2 hydrogenation catalysts might facilitate the formations of HCOO/COOH.

  1. A DFT study of substituent effects in corannulene dimers.

    PubMed

    Josa, Daniela; Rodríguez Otero, Jesús; Cabaleiro Lago, Enrique M

    2011-12-21

    Corannulene dimers made up of corannulene monomers with different curvature and substituents were studied using M06-2X, B97D and ωB97XD functionals and 6-31+G* basis set. Corannulene molecules were substituted with five alternating Br, Cl, CH(3), C(2)H or CN units. Geometric results showed that substituents gave rise to small changes in the curvature of corannulene bowls. So, there was not a clear relationship between the curvature of bowls and the changes on interaction energy generated by addition of substituents in the bowl. Electron withdrawing substituents gave rise to a more positive molecular electrostatic potential (MEP) of the bowl, which was able to get a strong interaction with the negative MEP at the surface of a fullerene. Substitution with CN caused the largest effect, giving rise to the most positive MEP and to a large interaction energy of -24.64 kcal mol(-1), at the ωB97XD/6-31+G* level. Dispersive effects must be taken into account to explain the catching ability of the different substituted corannulenes. For unsubstituted dimers, calculations with DFT-D methods employing ωB97XD and B97D functionals led to similar results to those previously reported at the SCS-MP2/cc-pVTZ level for corannulene dimers (A. Sygula and S. Saebø, Int. J. Quant. Chem., 2009, 109, 65). In particular, the ωB97XD functional led to a difference of only 0.35 kcal mol(-1), regarding MP2 interaction energy for corannulene dimers. On the other hand, the M06-2X functional showed a general considerable underestimation of interaction energies. This functional worked quite well to study trends, but not to obtain absolute interaction energies.

  2. DFT Study of Oxygen Dissociation in Molten Carbonate.

    PubMed

    Lei, Xueling; Haines, Kahla; Huang, Kevin; Qin, Changyong

    2015-08-20

    Using density functional theory method, we have studied the oxygen dissociation in alkali molten carbonate at the B3LYP/6-31G(d) level. The calculated energies were then verified by MP4 and CCSD(T). A four-formula cluster (M2CO3)4, M = Li, Na, and K was used to describe the molten carbonate. It was found that the adsorption of oxygen to molten carbonate is of a chemical type and leads to the formation of CO5(2-) in MC, which was confirmed for the first time by DFT calculations. The energy barrier for its dissociation is calculated to be 197.9, 116.7, and 170.3 kJ/mol in the (M2CO3)4 cluster, M = Li, Na, and K, respectively. If the reaction of O2 + 2CO3(2-) → 2CO4(2-) is approximated as a one-step reaction, the activation energy is estimated to be 96.2, 15.1, and 68.6 kJ/mol, respectively. The reaction rate is first order to the pressure of oxygen. Surprisingly, the reaction of oxygen dissociation has the lowest energy barrier in sodium carbonate, which is consistent with the recent experimental findings. It is very clear that the molten carbonate salt has directly participated in the ORR process and plays an important role as a catalyst in the cathode of SOFCs. The oxygen reduction has been facilitated by MC and enhanced cell performance has been observed.

  3. Molecular structure and charge transfer contributions to nonlinear optical property of 2-Methyl-4-nitroaniline: A DFT study

    NASA Astrophysics Data System (ADS)

    Jasmine, G. Femina; Amalanathan, M.; Roy, S. Dawn Dharma

    2016-05-01

    The Charge transfer contributions to the second-order nonlinear optical properties of 2-Methyl-4-nitroaniline have been performed by means of DFT computation. The vibrational contribution studies of 2-Methyl-4-nitroaniline have also been performed using FTIR, FT-Raman analysis. More support on the experimental findings were added from the quantum chemical studies performed with DFT (B3LYP) method using 6-311++G(d,p)basis sets. Natural bond orbital analysis confirms the presence of intramolecular charge transfer and the hydrogen bonding interaction. The HOMO and LUMO analysis reveals the possibility of charge transfer within the molecule. The first order hyperpolarizability (α0) and related properties (β,α0 and Δα) of 2-Methyl-4-nitroaniline were calculated. In addition, molecular electrostatic potential (MEP), charge analysis also were investigated using theoretical calculations.

  4. Temperature dependent Raman and DFT study of creatine.

    PubMed

    Gangopadhyay, Debraj; Sharma, Poornima; Singh, Ranjan K

    2015-01-01

    Temperature dependent Raman spectra of creatine powder have been recorded in the temperature range 420-100K at regular intervals and different clusters of creatine have been optimized using density functional theory (DFT) in order to determine the effect of temperature on the hydrogen bonded network in the crystal structure of creatine. Vibrational assignments of all the 48 normal modes of the zwitterionic form of creatine have been done in terms of potential energy distribution obtained from DFT calculations. Precise analysis gives information about thermal motion and intermolecular interactions with respect to temperature in the crystal lattice. Formation of higher hydrogen bonded aggregates on cooling can be visualized from the spectra through clear signature of phase transition between 200K and 180K. PMID:26010702

  5. DFT Study of Optical Properties of Pt-based Complexes

    NASA Astrophysics Data System (ADS)

    Oprea, Corneliu I.; Dumbravǎ, Anca; Moscalu, Florin; Nicolaides, Atnanassios; Gîrţu, Mihai A.

    2010-01-01

    We report Density Functional Theory (DFT) calculations providing the geometrical and electronic structures, as well as the vibrational and optical properties of the homologous series of Pt-pyramidalized olefin complexes (CH2)n-(C8H10)Pt(PH3)2, where n = 0, 1, and 2, in their neutral and oxidized states. All complexes were geometry optimized for the singlet ground state in vacuum using DFT methods with B3LYP exchange-correlation functional and the Effective Core Potential LANL2DZ basis set, within the frame of Gaussian03 quantum chemistry package. We find the coordination geometry of Pt to be distorted square planar, with dihedral angles ranging from 0°, for n = 0 and 1, which have C2V symmetry to 3.4°, for n = 2 with C2 symmetry. The Mulliken charge analysis allows a discussion of the oxidation state of the Pt ion. Electronic transitions were calculated at the same level of theory by means of Time Dependant-DFT. For n = 2 the electronic absorption bands are located in the UV region of the spectrum, the transitions being assigned to metal to ligand charge transfers. The relevance of these Pt-based compounds as possible pigments for dye-sensitized solar cells is discussed.

  6. DFT studies of CNT-functionalized uracil-acetate hybrids

    NASA Astrophysics Data System (ADS)

    Mirzaei, Mahmoud; Gulseren, Oguz

    2015-09-01

    Calculations based on density functional theory (DFT) have been performed to investigate the stabilities and properties of hybrid structures consisting of a molecular carbon nanotube (CNT) and uracil acetate (UA) counterparts. The investigated models have been relaxed to minimum energy structures and then various physical properties and nuclear magnetic resonance (NMR) properties have been evaluated. The results indicated the effects of functionalized CNT on the properties of hybrids through comparing the results of hybrids and individual structures. The oxygen atoms of uracil counterparts have been seen as the detection points of properties for the CNT-UA hybrids.

  7. Vibrational modes of aminothiophenol: a TERS and DFT study.

    PubMed

    Merlen, A; Chaigneau, M; Coussan, S

    2015-07-15

    We report Tip Enhanced Raman Spectroscopy (TERS) mapping and Density Functional (DFT) calculations of aminothiophenol (ATP) grafted on a gold surface. The TERS mapping has demonstrated Raman modes of (ATP) and its dimerised derivative Dimercaptoazobenzene (DMAB). This feature confirms that the plasmon activated chemical reaction of ATP has occurred during TERS measurements. In some specific part of the samples some unidentified Raman modes are observed. We suggest that they could come from intermediate species formed during the conversion of ATP into DMAB. These modes are compared with calculated Raman spectra of some possible intermediate species. These results confirm the high potentiality of TERS measurements for nanochemistry.

  8. Properties of the Oxidized Cu(110) Surface: The DFT study

    NASA Astrophysics Data System (ADS)

    Olenga, Antoine; Fazleev, N. G.

    2012-10-01

    The study of adsorption of oxygen on transition metal surfaces is important for the understanding of oxidation, heterogeneous catalysis, and metal corrosion. In this work we have studied from first principles the changes of electronic properties of the Cu(110) surface due to oxygen adsorption. Especially, we have focused on studies of changes in the work function, electronic density, interlayer spacing, density of states and band structure with oxygen coverage. Calculations of electronic properties from first principles have been also performed for the (110) and surface of Cu2O to use for comparison. The first-principles calculations in this work have been performed on the basis of the Density Functional Theory and using DMOl3 code. The obtained theoretical results have been compared with available experimental data.

  9. Assessment of TD-DFT and LF-DFT for study of d − d transitions in first row transition metal hexaaqua complexes

    SciTech Connect

    Vlahović, Filip; Perić, Marko; Zlatar, Matija; Gruden-Pavlović, Maja

    2015-06-07

    Herein, we present the systematic, comparative computational study of the d − d transitions in a series of first row transition metal hexaaqua complexes, [M(H{sub 2}O){sub 6}]{sup n+} (M{sup 2+/3+} = V {sup 2+/3+}, Cr{sup 2+/3+}, Mn{sup 2+/3+}, Fe{sup 2+/3+}, Co{sup 2+/3+}, Ni{sup 2+}) by the means of Time-dependent Density Functional Theory (TD-DFT) and Ligand Field Density Functional Theory (LF-DFT). Influence of various exchange-correlation (XC) approximations have been studied, and results have been compared to the experimental transition energies, as well as, to the previous high-level ab initio calculations. TD-DFT gives satisfactory results in the cases of d{sup 2}, d{sup 4}, and low-spin d{sup 6} complexes, but fails in the cases when transitions depend only on the ligand field splitting, and for states with strong character of double excitation. LF-DFT, as a non-empirical approach to the ligand field theory, takes into account in a balanced way both dynamic and non-dynamic correlation effects and hence accurately describes the multiplets of transition metal complexes, even in difficult cases such as sextet-quartet splitting in d{sup 5} complexes. Use of the XC functionals designed for the accurate description of the spin-state splitting, e.g., OPBE, OPBE0, or SSB-D, is found to be crucial for proper prediction of the spin-forbidden excitations by LF-DFT. It is shown that LF-DFT is a valuable alternative to both TD-DFT and ab initio methods.

  10. Electronic states of alkali metal-NTCDA complexes: A DFT study

    NASA Astrophysics Data System (ADS)

    Tachikawa, Hiroto; Kawabata, Hiroshi

    2015-10-01

    Structures and electronic states of organic-inorganic compound of 1,4,5,8-naphthalene-tetracarboxylic-dianhydride (NTCDA) with alkali metals, Mn(NTCDA) (Mdbnd Li and Na, n = 0-2), have been investigated by means of hybrid density functional theory (DFT) calculations. From the DFT calculations, it was found that the electronic state of the complex at the ground state is characterized by a charge-transfer state expressed by (M)+(NTCDA)-. The alkali metals were bound equivalently to the carbonyl oxygen and ether oxygen atoms of NTCDA. The Cdbnd O double bond character of NTCDA was changed to a C-O single bond like character by the strong interaction of M to the Cdbnd O and O sites. This change was the origin of the red-shift of the IR spectrum. The UV-vis absorption spectra of Mn(NTCDA) were theoretically predicted on the basis of theoretical results.

  11. Synthesis, structural, spectral characterization, DFT analysis and antimicrobial studies of aquabis(L-ornithine)copper(II) picrate

    NASA Astrophysics Data System (ADS)

    Kumar, Rakesh; Obrai, Sangeeta; Sharma, Aparna; Kaur Jassal, Amanpreet; Hundal, Maninder Singh; Mitra, Joyee

    2014-10-01

    The present work consists of synthesis, spectroscopic, DFT studies and crystal structure investigation of complex [Cu(L-orn)2(H2O)](PIC)2 (where L-orn = L-ornithine, PIC = picrate anion). The molecular structure of complex was determined by X-ray crystallography and refined by three-dimensional least squares techniques. Copper atom is five coordinate and two molecules of L-ornithine are coordinating with it through their carboxylate oxygens and amine nitrogens whereas the fifth site is occupied by water molecule. Both of the picrate anions are present outside the coordination sphere of metal ion resulting in formation of charge-separated type complex. EPR spectrum suggests about the distorted square-pyramidal geometry of the complex and is confirmed by X-ray crystallography. The optimized structure of the present complex has been studied using the DFT/B3LYP/6-31G*(d,p)/LANL2DZ level of theory. The vibrational assignments and HOMO-LUMO were theoretically examined by means of the hybrid DFT method. Also the antimicrobial properties of the title complex have been explored in the present work.

  12. A combined Raman, DFT and MD study of the solvation dynamics and the adsorption process of pyridine in silver hydrosols.

    PubMed

    Pagliai, Marco; Bellucci, Luca; Muniz-Miranda, Maurizio; Cardini, Gianni; Schettino, Vincenzo

    2006-01-01

    The adsorption of pyridine onto silver colloids has been investigated by Raman spectroscopy experiments and by ab initio DFT and MP2 calculations. The solvation dynamics of the pyridine in water has been studied by a molecular dynamics simulation. The results are compared with the latest available experimental and theoretical data. It is found that the pyridine is essentially hydrogen bonded to one solvent molecule. Calculations based on pyridine-water and pyridine-Ag(+) complexes allow the reproduction of the experimentally observed Raman features and explain the adsorption process of the ligand in silver hydrosols.

  13. Synthesis and antibacterial activity of sulfonamides. SAR and DFT studies

    NASA Astrophysics Data System (ADS)

    Boufas, Wahida; Dupont, Nathalie; Berredjem, Malika; Berrezag, Kamel; Becheker, Imène; Berredjem, Hajira; Aouf, Nour-Eddine

    2014-09-01

    A series of substituted sulfonamide derivatives were synthesized from chlorosulfonyl isocyanate (CSI) in tree steps (carbamoylation, sulfamoylation and deprotection). Antibacterial activity in vitro of some newly formed compounds investigated against clinical strains Gram-positive and Gram-negative: Escherichia coli and Staphylococcus aureus applying the method of dilution and minimal inhibition concentration (MIC) methods. These compounds have significant bacteriostatic activity with totalities of bacterial strains used. DFT calculations with B3LYP/6-31G(d) level have been used to analyze the electronic and geometric characteristics deduced for the stable structure of three compounds presenting conjugation between a nitrogen atom N through its lone pair and an aromatic ring next to it. The principal quantum chemical descriptors have been correlated with the antibacterial activity.

  14. A DFT study of formaldehyde adsorption on functionalized graphene nanoribbons

    NASA Astrophysics Data System (ADS)

    Maaghoul, Zohreh; Fazileh, Farhad; Kakemam, Jamal

    2015-02-01

    Density functional theory (DFT) based ab initio calculations were done to monitor the formaldehyde (CHOH) adsorptive behavior on pristine and Ni-decorated graphene sheet. Structural optimization indicates that the formaldehyde molecule is physisorbed on the pristine sheet via partly weak van der Waals attraction having the adsorption energy of about -15.7 kcal/mol. Metal decorated sheet is able to interact with the CHOH molecule, so that single Ni atoms prefer to bind strongly at the bridge site of graphene and each metal atom bound on sheet may adsorb up to four CHOH. The findings also show that the Ni decoration on graphene surface results in some changes in electronic properties of the sheet and its Eg is remained unchanged after adsorption of CHOH molecules. It is noteworthy to say that no bond cleavage was observed for the adsorption of CHOH on Ni-decorated graphene.

  15. Copper-ceria interaction: A combined photoemission and DFT study

    NASA Astrophysics Data System (ADS)

    Szabová, Lucie; Skála, Tomáš; Matolínová, Iva; Fabris, Stefano; Farnesi Camellone, Matteo; Matolín, Vladimír

    2013-02-01

    Stoichiometric and partially reduced ceria films were deposited on preoxidized Ru(0 0 0 1) crystal by Ce evaporation in oxygen atmosphere of different pressures at 700 K. Copper-ceria interaction was investigated by deposition of metalic copper on both types of substrate. The samples were characterized by low energy electron diffraction (LEED), X-ray photoelectron spectroscopy (XPS) of core states and resonant photoelectron spectroscopy (RPES) of the valence bands. Copper adsorption on stoichiometric ceria caused reduction of CeO2, while on the oxygen-defficient ceria it partially reoxidized the substrate. This is in agreement with DFT+U calculations of copper adsorption on stoichiometric and defective ceria surfaces.

  16. Determination of Structural and Vibrational Properties of 5-QUINOLINECARBOXALDEHYDE Using Experimental Ft-Ir Ft-Raman Techniques and Theoretical HF and DFT Methods

    NASA Astrophysics Data System (ADS)

    Kumru, Mustafa; Kocademir, Mustafa; Bardakci, Tayyibe

    2013-06-01

    Quinoline derivatives have been used in several pharmaceuticals. They have vital roles in regulating the functions of DNA and cancerous cells. It's necessary to determine the structures and spectroscopic properties of quinoline derivates. In this study, the FT-IR (including mid and far regions) and FT-Raman spectra of 5-quinolinecarboxaldehyde have been investigated. Hartree-Fock (HF) and density functional B3LYP calculations have also been employed with the 6-311++G(d,p) basis set for investigating the structural and spectroscopic properties of the cis and trans conformers of 5-quinolinecarboxaldehyde. Experimental and theoretical results have been compared and the results are in good agreement with each other. Keywords: 5-quinolinecarboxaldehyde; Vibrational Spectroscopy; FT-IR spectra; FT-Raman spectra; Vibrational Modes; HF; DFT [1] V. Kucuk, A. Altun, M. Kumru, Spectrochim. Acta Part A 85(2012)92-98 [2] M. Kumru, V. Kucuk, T. Bardakci, Spectrochim. Acta Part A 90(2012)28-34 [3] M. Kumru, V. Kucuk, M. Kocademir, Spectrochim. Acta Part A, 96 (2012) 242-251 We thank the Turkish Scientific and Technical Research Council (TUBITAK) for their financial support through National Postdoctoral Research Scholarship Programme and Scientific Research Fund of Fatih University under the project number P50011001 G (1457).

  17. First principles DFT study of dye-sensitized CdS quantum dots

    SciTech Connect

    Jain, Kalpna; Singh, Kh. S.; Kishor, Shyam; Josefesson, Ida; Odelius, Michael; Ramaniah, Lavanya M.

    2014-04-24

    Dye-sensitized quantum dots (QDs) are considered promising candidates for dye-sensitized solar cells. In order to maximize their efficiency, detailed theoretical studies are important. Here, we report a first principles density functional theory (DFT) investigation of experimentally realized dye - sensitized QD / ligand systems, viz., Cd{sub 16}S{sub 16}, capped with acetate molecules and a coumarin dye. The hybrid B3LYP functional and a 6−311+G(d,p)/LANL2dz basis set are used to study the geometric, energetic and electronic properties of these clusters. There is significant structural rearrangement in all the clusters studied - on the surface for the bare QD, and in the positions of the acetate / dye ligands for the ligated QDs. The density of states (DOS) of the bare QD shows states in the band gap, which disappear on surface passivation with the acetate molecules. Interestingly, in the dye-sensitised QD, the HOMO is found to be localized mainly on the dye molecule, while the LUMO is on the QD, as required for photo-induced electron injection from the dye to the QD.

  18. DFT study of cisplatin@carbon nanohorns complexes.

    PubMed

    De Souza, Leonardo A; Nogueira, Camila A S; Lopes, Juliana F; Dos Santos, Hélio F; De Almeida, Wagner B

    2013-12-01

    This paper reports a quantum chemical investigation of the inclusion complex formation between a carbon nanohorn structure and cisplatin molecule, using the density functional theory (DFT) with the B3LYP functional and 6-31G(d,p)/LanL2DZ standard basis sets. The inclusion of the drug in host molecules such as carbon nanohorns (CNHs), aims to reduce the toxicity and enhance the effectiveness of cisplatin. In this work we carried out a search for minimum energy structures on the potential energy surface (PES) for CNH-cisplatin interaction, and then calculated the stabilization energy, charge distribution and NMR spectra, which can be of great aid for the experimental identification of the inclusion compound. Our results indicate that the CNH and cisplatin can indeed form stable inclusion complex, with the calculated (1)H NMR and (15)N NMR chemical shifts for cisplatin atoms revealing very substantial changes due to complex formation (~20ppm) that can be easily experimentally observed, which is helpful to the spectra assignment and the inclusion compound structural elucidation. PMID:24091348

  19. DFT study of glycosyl group reactivity in quercetin derivatives

    NASA Astrophysics Data System (ADS)

    Jeevitha, D.; Sadasivam, K.; Praveena, R.; Jayaprakasam, R.

    2016-09-01

    Density functional theory (DFT) is used to compute relevant electronic properties with the purpose of generating precise information which facilitates the best activity given by the positions of glycosyl group attached at all 3 different rings of quercetin such as Q3G (C- ring), Q7G (A-ring) and Q3‧G (B-ring). Computed values of the OH BDE, frontier molecular orbitals (FMOs), molecular electrostatic potential (MEP), Density of states (DOS,PDOS,OPDOS) and electronic properties such as electron affinity (EA), ionization potential (IP), softness (S), hardness (η), electronegativity (χ) and electrophilic index (ω) indicate that the title compounds possess good radical scavenging activity. Charge delocalization and intramolecular hydrogen bonds are characterized using natural bond orbital (NBO) analysis. NBO accurately differentiate the weak and strong intramolecular hydrogen bond of quercetin-O-glycoside compounds. Results available from the computational investigation have proved that A-ring glycoside of quercetin is capable of donating electrons and acts as a good anti-oxidant than B-ring glycoside and C-ring glycoside of quercetin.

  20. Computational Investigation of Ge Doped Au Nanoalloy Clusters: A DFT Study

    NASA Astrophysics Data System (ADS)

    Ranjan, P.; Kumar, A.; Chakraborty, T.

    2016-09-01

    In this study, electronic and optical properties of AunGe (n=1-9) nanoalloy clusters are systematically investigated in terms of the Density Functional Theory (DFT) with the Becke, three parameter, Lee-Yang-Parr (B3LYP) exchange correlation functional. Conceptual DFT based global descriptors have turned to be indispensable tools for correlating the experimental properties of compounds. In this study, experimental properties of AunGe (n=1-9) nanoalloy clusters are correlated in terms of DFT based descriptors viz. HOMO-LUMO gap, Global Hardness (n), Global Softness (S), Electronegativity (x) and Electrophilicity Index (ra). Our computed bond length exhibits a close agreement with experimental data. The high value of regression coefficient between global softness and HOMO-LUMO gap supports and validates our predicted model.

  1. Vibrational spectroscopic, structural and nonlinear optical activity studies on 6-aminonicotinamide: A DFT approach

    NASA Astrophysics Data System (ADS)

    Asath, R. Mohamed; Premkumar, S.; Rekha, T. N.; Jawahar, A.; Mathavan, T.; Benial, A. Milton Franklin

    2016-05-01

    The conformational analysis was carried out for 6-aminonicotinamide (ANA) using potential energy surface scan method and the most stable optimized conformer was predicted. The theoretical vibrational frequencies were calculated for the optimized geometry using DFT/B3LYP cc-pVQZ basis set by Gaussian 09 Program. The vibrational frequencies were assigned on the basis of potential energy distribution calculation using VEDA 4.0 program. The Mulliken atomic charge values were calculated. In the Frontier molecular orbitals analysis, the molecular reactivity, kinetic stability, intermolecular charge transfer studies and the related molecular properties were calculated. The ultraviolet-visible spectrum was simulated for both in the gas phase and liquid phase (ethanol) and the л to л* electronic transition was predicted. The nonlinear optical (NLO) activity was studied by means of the first order hyperpolarizability value, which was 8.61 times greater than the urea and the natural bond orbital analysis was also performed to confirm the NLO activity of the molecule. Hence, the ANA molecule is a promising candidate for the NLO materials.

  2. PM6 and DFT study of free radical scavenging activity of morin.

    PubMed

    Marković, Zoran; Milenković, Dejan; Đorović, Jelena; Dimitrić Marković, Jasmina M; Stepanić, Višnja; Lučić, Bono; Amić, Dragan

    2012-10-15

    Flavonoids have long been recognised for their general health-promoting properties, of which their antioxidant activity may play an important role. In this work, we have studied the properties of flavonoid morin using semiempirical and density functional theory (DFT) methods in order to validate the application of the recently developed parametric method 6 (PM6). Reaction enthalpies related to mechanisms of free radical scavenging by flavonoid morin were calculated by DFT and PM6 methods in gas-phase, water, DMSO and benzene. It has been shown that fast semiempirical PM6 method can mimic results obtained by means of more accurate time consuming DFT calculations. Thermodynamically favoured mechanism depends on reaction medium: SPLET (sequential proton loss electron transfer) is preferred in water and DMSO, and HAT (hydrogen atom transfer) is predominant in gas-phase. In benzene these two mechanisms are competitive.

  3. SERS and DFT study of copper surfaces coated with corrosion inhibitor

    PubMed Central

    Muniz-Miranda, Francesco; Caporali, Stefano

    2014-01-01

    Summary Azole derivatives are common inhibitors of copper corrosion due to the chemical adsorption occurring on the metal surface that gives rise to a protective film. In particular, 1,2,4-triazole performs comparable to benzotriazole, which is much more widely used, but is by no means an environmentally friendly agent. In this study, we have analyzed the adsorption of 1,2,4-triazole on copper by taking advantage of the surface-enhanced Raman scattering (SERS) effect, which highlights the vibrational features of organic ligand monolayers adhering to rough surfaces of some metals such as gold, silver and copper. To ensure the necessary SERS activation, a roughening procedure was implemented on the copper substrates, resulting in nanoscale surface structures, as evidenced by microscopic investigation. To obtain sufficient information on the molecule–metal interaction and the formation of an anticorrosive thin film, the SERS spectra were interpreted with the aid of theoretical calculations based on the density functional theory (DFT) approach. PMID:25671144

  4. Size dependent magnetic and optical properties in diamond shaped graphene quantum dots: A DFT study

    NASA Astrophysics Data System (ADS)

    Das, Ritwika; Dhar, Namrata; Bandyopadhyay, Arka; Jana, Debnarayan

    2016-12-01

    The magnetic and optical properties of diamond shaped graphene quantum dots (DSGQDs) have been investigated by varying their sizes with the help of density functional theory (DFT). The study of density of states (DOS) has revealed that the Fermi energy decreases with increase in sizes (number of carbon atoms). The intermediate structure with 30 carbon atoms shows the highest magnetic moment (8 μB, μB being the Bohr magneton). The shifting of optical transitions to higher energy in smallest DSGQD (16 carbon atoms) bears the signature of stronger quantum confinement. However, for the largest structure (48 carbon atoms) multiple broad peaks appear in case of parallel polarization and in this case electron energy loss spectra (EELS) peak (in the energy range 0-5 eV) is sharp in nature (compared to high energy peak). This may be attributed to π plasmon and the broad peak (in the range 10-16 eV) corresponds to π + σ plasmon. A detail calculation of the Raman spectra has indicated some prominent mode of vibrations which can be used to characterize these structures (with hydrogen terminated dangling bonds). We think that these theoretical observations can be utilized for novel device designs involving DSGQDs.

  5. Spectroscopic, thermal analysis and DFT computational studies of salen-type Schiff base complexes

    NASA Astrophysics Data System (ADS)

    Ebrahimi, Hossein Pasha; Hadi, Jabbar S.; Abdulnabi, Zuhair A.; Bolandnazar, Zeinab

    2014-01-01

    A new series of metal(II) complexes of Co(II), Ni(II), Cu(II), Zn(II), and Pb(II) have been synthesized from a salen-type Schiff base ligand derived from o-vanillin and 4-methyl-1,2-phenylenediamine and characterized by elemental analysis, spectral (IR, UV-Vis, 1H NMR, 13C NMR and EI-mass), molar conductance measurements and thermal analysis techniques. Coats-Redfern method has been utilized to calculate the kinetic and thermodynamic parameters of the metal complexes. The molecular geometry, Mulliken atomic charges of the studied compounds were investigated theoretically by performing density functional theory (DFT) to access reliable results to the experimental values. The theoretical 13C chemical shift results of the studied compounds have been calculated at the B3LYP, PBEPBE and PW91PW91 methods and standard 6-311+G(d,p) basis set starting from optimized geometry. The comparison of the results indicates that B3LYP/6-311+G(d,p) yields good agreement with the observed chemical shifts. The measured low molar conductance values in DMF indicate that the metal complexes are non-electrolytes. The spectral and thermal analysis reveals that all complexes have octahedral geometry except Cu(II) complex which can attain the square planner arrangement. The presence of lattice and coordinated water molecules are indicated by thermograms of the complexes. The thermogravimetric (TG/DTG) analyses confirm high stability for all complexes followed by thermal decomposition in different steps.

  6. Dimerization of Indanedioneketene to Spiro-oextanone: A Theoretical Study

    SciTech Connect

    Bakalbassis, Evangelos G; Malamidou-Xenikaki, Elizabeth; Spyroudis, Spyros; Xantheas, Sotiris S

    2010-08-20

    Indanedioneketene, a compound resulting from the thermal degradation of the phenyliodonium ylide of lawsone, dimerises quantitatively to a spiro-oxetanone derivative, a key compound for further transformations. A theoretical DFT study of this unusual for α-oxoketenes [2+2] cyclization reaction both in the gas phase and in dichloromethane solution, provides support for a) a single-step, transitionstate (involving a four-membered cyclic ring) charge controlled, concerted mechanism, and b) a [4+2] cyclization reaction, not observed but studied theoretically in this study. A parallel study of an open chain α,α'-dioxoketene dimerization explains the difference in the stability and reactivity observed experimentally between the cyclic and open chain products.

  7. Spectroscopic studies on 9H-carbazole-9-(4-phenyl) boronic acid pinacol ester by DFT method

    NASA Astrophysics Data System (ADS)

    Sas, E. B.; Kurt, M.; Can, M.; Horzum, N.; Atac, A.

    2016-08-01

    9H-Carbazole-9-(4-phenyl) boronic acid pinacol ester (9-CPBAPE) molecule was investigated by FT-IR, Raman, UV-vis, 1H and 13C NMR spectra. FT-IR, FT-Raman and dispersive Raman spectra were recorded in the solid phase. 1H, 13C NMR and UV-vis spectra were recorded in dimethyl sulfoxide (DMSO) solution. The results of theoretical calculations for the spectra of the title molecule were compared with the experimental spectra. The highest occupied molecular orbital (HOMO) the lowest unoccupied molecular orbital (LUMO) and molecular electrostatic potential (MEP) analyses were performed. The theoretical calculations for the molecular structure and spectroscopic studies were performed with DFT (B3LYP) and 6-311G (d,p) basis set calculations using the Gaussian 09 program. The total (TDOS), partial (PDOS) density of state and overlap population density of state (OPDOS) diagrams analyses were performed using GaussSum 2.2 program.

  8. Theoretical study of phenyl-substituted indacenodithiophene copolymers for high performance organic photovoltaics.

    PubMed

    Chochos, Christos L; Avgeropoulos, Apostolos; Lidorikis, Elefterios

    2013-02-14

    The theoretical estimation of energy levels and energy gaps of conjugated polymers for organic photovoltaics (OPVs) represents in principle a useful tool for the prescreening of new donor systems as a suitable pair for the fullerene derivative [6,6]-phenyl-C61-butyric acid methyl ester (PC61BM). In this study, ten tetraphenyl-substituted indacenodithiophene (IDT) copolymers (eight in the form of donor-acceptor), whose energy gaps vary in the range of 1.48-2.11 eV have been selected and their highest occupied molecular orbitals (HOMOs), lowest unoccupied molecular orbitals (LUMOs), and gap energies have been calculated by applying density functional theory (DFT) and/or time-dependent density functional theory (TD-DFT) methods. In spite of the examined molecular structure variety, nice correlations (theoretical models) between experimental and theoretical electronic parameters were found. It is shown that the theoretical band gap estimated by the TD-DFT using dimer model compounds and DFT using tetramer model compounds provide in good agreement the optical band gap of these polymers. Finally, the optimum theoretical limits of the LUMO offset between the fullerene and the IDT tetramer model compounds, for which high performance OPVs (efficiency > 6%) are obtained, is presented for the first time.

  9. Matrix isolation FTIR spectroscopic and DFT studies of metal-carbide clusters

    NASA Astrophysics Data System (ADS)

    Bejjani, Micheline

    2011-01-01

    Several metal containing molecules, including MgCN, NaCN, KCl, AlOH, and AlF have been observed in the interstellar medium. Additionally, transition metals have been observed. Many carbon containing molecules have also been observed in astrophysical sources. The purpose of the present research is to provide information on the spectral properties of metal carbide molecules that are potentially observable in space. Additional interest for studying small metal carbide molecules is the understanding of larger clusters including metallofullerenes and metallocarbohedrenes, and the catalytic growth of carbon nanotubes. FTIR spectra were obtained by condensing the vapor produced by dual laser ablation of metal and carbon rods in an argon matrix at ˜12K. Comparison of the observed 13C enriched vibrational spectra to the DFT simulated isotopic spectra has enabled the identification of vibrational fundamentals of linear MnC3, linear MgC3-, and chain ZnC3. The linear MnC3 has been detected for the first time. Its nu 1(sigma) vibrational fundamental has been observed at 1846.9 cm -1. Although previous photoelectron studies by Wang and Li have reported evidence for the cyclic isomer of MnC3, their assignment was inconclusive since the linear and fanlike structures have been found to lie very close in energy, and the observed PE frequency matched the frequencies predicted for the vibrational fundamentals of both the linear and the fanlike isomers of MnC3. Theoretical investigations of MgC3 - have indicated that the bent, linear, fan and kite structures are close in energy, and thus are potentially observables. In the present work, the nu1(sigma) asymmetric carbon stretching mode of linear MgC3- has been observed at 1797.5 cm-1. A second absorption at 1190.1 cm-1 which is correlated in intensity to the nu1(sigma) has tentatively been assigned to the nu2(sigma) vibrational fundamental. Although DFT calculations on ZnC3 have indicated that the linear, bent and kite structures are

  10. Theoretical studies of combustion dynamics

    SciTech Connect

    Bowman, J.M.

    1993-12-01

    The basic objectives of this research program are to develop and apply theoretical techniques to fundamental dynamical processes of importance in gas-phase combustion. There are two major areas currently supported by this grant. One is reactive scattering of diatom-diatom systems, and the other is the dynamics of complex formation and decay based on L{sup 2} methods. In all of these studies, the authors focus on systems that are of interest experimentally, and for which potential energy surfaces based, at least in part, on ab initio calculations are available.

  11. EPR spin trapping and DFT studies on structure of active antioxidants in biogycerol

    NASA Astrophysics Data System (ADS)

    Jerzykiewicz, Maria; Ćwieląg-Piasecka, Irmina; Witwicki, Maciej; Jezierski, Adam

    2010-09-01

    Spin trapping EPR spectroscopy and DFT methods were used to investigate the structure of antioxidants present in bioglycerols [glycerol fractions (GF) derived from biodiesel production]. For this purpose the reactions of GF components and their pure reference chemicals with PBN and H 2O 2 were examined via EPR measurements. The EPR parameters of formed PBN spin adducts indicated the α-tocopherol origin of the trapped radicals. The comparative analysis of experimental and theoretically calculated hyperfine constants for the spin adducts strongly suggests the carbon-centered nature of the radicals generated and trapped by PBN in the bioglycerol systems.

  12. DFT and ENDOR Study of Bixin Radical Cations and Neutral Radicals on Silica-Alumina.

    PubMed

    Tay-Agbozo, Sefadzi S; Krzyaniak, Matthew D; Bowman, Michael K; Street, Shane; Kispert, Lowell D

    2015-06-18

    Bixin, a carotenoid found in annatto (Bixa orellana), is unique among natural carotenoids by being water-soluble. We stabilized free radicals from bixin on the surface of silica-alumina (Si-Al) and characterized them by pulsed electron-nuclear double resonance (ENDOR). DFT calculations of unpaired electron spin distribution for various bixin radicals predict the EPR hyperfine couplings. Least-square fitting of experimental ENDOR spectra by spectra calculated from DFT hyperfine couplings characterized the radicals trapped on Si-Al. DFT predicts that the trans bixin radical cation is more stable than the cis bixin radical cation by 1.26 kcal/mol. This small energy difference is consistent with the 26% trans and 23% cis radical cations in the ENDOR spectrum. The remainder of the ENDOR spectrum is due to several neutral radicals formed by loss of a H(+) ion from the 9, 9', 13, or 13' methyl group, a common occurrence in all water-insoluble carotenoids previously studied. Although carboxyl groups of bixin strongly affect its solubility relative to other natural carotenoids, they do not alter properties of its free radicals based on DFT calculations and EPR measurements which remain similar to typical water-insoluble carotenoids.

  13. DFT and ENDOR Study of Bixin Radical Cations and Neutral Radicals on Silica-Alumina.

    PubMed

    Tay-Agbozo, Sefadzi S; Krzyaniak, Matthew D; Bowman, Michael K; Street, Shane; Kispert, Lowell D

    2015-06-18

    Bixin, a carotenoid found in annatto (Bixa orellana), is unique among natural carotenoids by being water-soluble. We stabilized free radicals from bixin on the surface of silica-alumina (Si-Al) and characterized them by pulsed electron-nuclear double resonance (ENDOR). DFT calculations of unpaired electron spin distribution for various bixin radicals predict the EPR hyperfine couplings. Least-square fitting of experimental ENDOR spectra by spectra calculated from DFT hyperfine couplings characterized the radicals trapped on Si-Al. DFT predicts that the trans bixin radical cation is more stable than the cis bixin radical cation by 1.26 kcal/mol. This small energy difference is consistent with the 26% trans and 23% cis radical cations in the ENDOR spectrum. The remainder of the ENDOR spectrum is due to several neutral radicals formed by loss of a H(+) ion from the 9, 9', 13, or 13' methyl group, a common occurrence in all water-insoluble carotenoids previously studied. Although carboxyl groups of bixin strongly affect its solubility relative to other natural carotenoids, they do not alter properties of its free radicals based on DFT calculations and EPR measurements which remain similar to typical water-insoluble carotenoids. PMID:25333911

  14. DFT study of the interaction between the conjugated fluorescein and dabcyl system, using fluorescene quenching method.

    PubMed

    Alvarado-González, Mónica; Gallo, Marco; Lopez-Albarran, Pablo; Flores-Holguín, Norma; Glossman-Mitnik, Daniel

    2012-09-01

    Molecular beacon is a DNA probe containing a sequence complementary to the target that is flanked by self-complementary termini, and carries a fluorophore and a quencher at the ends. We used the fluorescein and dabcyl as fluorophore and quencher respectively, and studied with DFT calculations at the GGA/DNP level, and taking into account DFT dispersion corrections by the Grimme and Tkatchenko-Scheffler (TS) schemes, the distance, where the most favorable energetic interaction between the fluorophore and quencher in conjugated form occurs. This distance occurs at a separation distance of 29.451 Å between the centers of Dabcyl and fluorescein employing the TS DFT dispersion correction scheme, indicating FRET efficiency around 94.28 %. The calculated emission spectra of the conjugated pair in water indicated that the emission and absorption spectrum overlap completely and thus no fluorescence can be observed due to the fluorescence resonance energy transfer (FRET) effect. The DFT results confirmed the experimentally observing fluorescence quenching of the fluorescein-dabcyl conjugated system by FRET.

  15. Theoretical studies of molecular collisions

    NASA Technical Reports Server (NTRS)

    Kouri, Donald J.

    1991-01-01

    The following subject areas are covered: (1) total integral reactive cross sections and vibrationally resolved reaction probabilities for F + H2 = HF + H; (2) a theoretical study of inelastic O + N2 collisions; (3) body frame close coupling wave packet approach to gas phase atom-rigit rotor inelastic collisions; (4) wave packet study of gas phase atom-rigit motor scattering; (5) the application of optical potentials for reactive scattering; (6) time dependent, three dimensional body frame quantal wave packet treatment of the H + H2 exchange reaction; (7) a time dependent wave packet approach to atom-diatom reactive collision probabilities; (8) time dependent wave packet for the complete determination of s-matrix elements for reactive molecular collisions in three dimensions; (9) a comparison of three time dependent wave packet methods for calculating electron-atom elastic scattering cross sections; and (10) a numerically exact full wave packet approach to molecule-surface scattering.

  16. DFT STUDY REVISES INTERSTITIAL CONFIGURATIONS IN HCP Zr

    SciTech Connect

    Samolyuk, German D; Golubov, Stanislav I; Osetskiy, Yury N; Stoller, Roger E

    2012-06-01

    Analysis of experimental result on microstructure evolution in irradiated Zr and alloys has demonstrated that available knowledge on self-interstitial defects in Zr is in contradiction. We therefore have initiated an extensive theoretical and modeling program to clarify this issue. In this report we present first ab initio calculations results of single SIA configurations in Zr. We demonstrate importance of simulations cell size, applied exchange-correlation functional and simulated c/a ratio. The results obtained demonstrate clearly that the most stable configurations are in basal plane and provide some evidences for enhanced interstitial transport along basal planes. The results obtained will be used in generation a new interatomic potential for Zr to be used in large-scale atomistic modeling of mechanisms relevant for radiation-induced microstructure evolution.

  17. Insights into the coordination mode of quercetin with the Al(III) ion from a combined experimental and theoretical study.

    PubMed

    Furia, Emilia; Marino, Tiziana; Russo, Nino

    2014-05-21

    Combining potentiometric, spectroscopic and theoretical DFT computations we have studied the formation of the Al(iii)-quercetin complex in ethanol solution. The possible complexation sites have been considered on the basis of all the experimental and theoretical tools used. Results supported proposing a 1 : 1 neutral complex and the possibility to have different isomers in solution.

  18. A DFT study on dihydropyrazine annulated linear polyacenes: aromaticity, stability and HOMO-LUMO energy modulation.

    PubMed

    Rakhi, Ramachandran; Suresh, Cherumuttathu H

    2016-09-21

    Linear polyacenes (LPAs) beyond pentacene are highly unstable and their application potential in the optoelectronics field is very limited. On the basis of theoretical studies at the M06L/6-311++G(d,p) level of DFT, we show that annulating dihydropyrazine units to LPA cores can yield large LPA mimics. This strategy enhances the aromaticity of the LPA core and also provides a way to modulate the HOMO-LUMO energy gap by choosing an appropriate LPA core and extending dihydropyrazine annulation. The study is conducted for LPA mimics containing up to six dihydropyrazine units annulated to benzene (pB1-pB6), naphthalene (pN1-pN6), anthracene (pA1-pA6) and tetracene (pT1-pT6) cores. The longest of them pT6 contains 34 linearly connected six-membered rings. The dehydrogenation energy (Edh) of the N-heterocycles of the LPA mimics showed endothermic character and indicated their higher stability than dehydrogenated N-heteroacenes. The total Edh (ΣEdh) is proportional to the increase in the number of heterocycles and the increase in the size of the LPA core. The aromaticity of individual rings of all the LPA mimics is assessed on the basis of the harmonic oscillator model of aromaticity (HOMA) and nucleus independent chemical shift (NICS) parameters. Both parameters showed strong linear correlation with ΣEdh, confirming the geometric, magnetic and energetic criteria of aromaticity. The electronic features of the LPA mimics assessed by analysing molecular electrostatic potential topography and molecular orbitals have shown that the LPA cores retain the reactivity of the parent LPA. Furthermore, significant mixing of the N-lone pairs of the heterocycle with carbon π-orbitals improves aromaticity and decreases the HOMO-LUMO energy gap. PMID:27546099

  19. Crystal structure, vibrational studies, optical properties and DFT calculations of 2-amino-5-diethyl-aminopentanium tetrachlorocadmate (II).

    PubMed

    Baklouti, Yosra; chaari, Najla; Feki, Habib; Chniba-Boudjada, Nassira; Zouari, Fatma

    2015-02-01

    Single crystals of a new organic-inorganic compound (C9H24N2) CdCl4 were grown by the slow evaporation technique and characterized by X-ray diffraction, infrared absorption Raman spectroscopy scattering, optical absorption, differential scanning calorimetry (DSC) analysis and dielectric measurements. The title compound belongs to the orthorhombic space group Pbca with the following unit cell parameters: a=11.397(7), b=13.843(4), c=22.678(5)Å and Z=8. In crystal structure, the tetrachlorocadmate anion is connected to organic cations through N-H⋯Cl hydrogen bonds. Theoretical calculations were performed using density functional theory (DFT) with the B3LYP/LanL2DZ level of theory for studying the molecular structure and vibrational spectra of the title compound. Good consistency is found between the calculated results and the experimental structure, IR, and Raman spectra. The detailed interpretation of the vibrational modes was carried out on the basis on our DFT calculations as primary source of assignment and by comparison with spectroscopic studies of similar compounds. The optical properties were investigated by optical absorption and show three bands at 300, 329 and 513 nm. PMID:25311521

  20. DFT modeling, UV-Vis and IR spectroscopic study of acetylacetone-modified zirconia sol-gel materials.

    PubMed

    Georgieva, Ivelina; Danchova, Nina; Gutzov, Stoyan; Trendafilova, Natasha

    2012-06-01

    Theoretical and spectroscopic studies of a series of monomeric and dimeric complexes formed through the modification of a zirconium butoxide precursor with acetylacetone and subsequent hydrolysis and/or condensation have been performed by applying DFT/B3LYP/6-31++G(d) and highly accurate RI-ADC(2) methods as well as IR and UV-Vis transmittance and diffuse reflectance spectroscopies. Based on DFT model calculations and simulated and experimental UV-Vis and IR spectra of all the studied structures, the most probable building units of the Zr(IV)-AcAc gel were predicted: the dimeric double hydroxo-bridged complex Zr(2)(AcAc)(2)(OH)(4)(OH)(2br) 9 and the monooxo-bridged complex Zr(2)(AcAc)(2)(OH)(4)O(br)·2H(2)O 12. In both structures, the two AcAc ligands are coordinated to one Zr atom. It was shown that building units 9 and 12 determine the photophysical and vibrational properties of the gel material. The observed UV-Vis and IR spectra of Zr(IV)-AcAc gel were interpreted and a relation between the spectroscopic and structural data was derived. The observed UV-Vis bands at 315 nm and 298/288 nm were assigned to partial ligand-metal transitions and to intra-/inter-AcAc ligand transitions, respectively. PMID:21989960

  1. Rate constants of hydroperoxyl radical addition to cyclic nitrones: a DFT study.

    PubMed

    Villamena, Frederick A; Merle, John K; Hadad, Christopher M; Zweier, Jay L

    2007-10-01

    Nitrones are potential synthetic antioxidants against the reduction of radical-mediated oxidative damage in cells and as analytical reagents for the identification of HO2* and other such transient species. In this work, the PCM/B3LYP/6-31+G(d,p)//B3LYP/6-31G(d) and PCM/mPW1K/6-31+G(d,p) density functional theory (DFT) methods were employed to predict the reactivity of HO2* with various functionalized nitrones as spin traps. The calculated second-order rate constants and free energies of reaction at both levels of theory were in the range of 100-103 M-1 s-1 and 1 to -12 kcal mol-1, respectively, and the rate constants for some nitrones are on the same order of magnitude as those observed experimentally. The trend in HO2* reactivity to nitrones could not be explained solely on the basis of the relationship of the theoretical positive charge densities on the nitronyl-C, with their respective ionization potentials, electron affinities, rate constants, or free energies of reaction. However, various modes of intramolecular H-bonding interaction were observed at the transition state (TS) structures of HO2* addition to nitrones. The presence of intramolecular H-bonding interactions in the transition states were predicted and may play a significant role toward a facile addition of HO2* to nitrones. In general, HO2* addition to ethoxycarbonyl- and spirolactam-substituted nitrones, as well as those nitrones without electron-withdrawing substituents, such as 5,5-dimethyl-pyrroline N-oxide (DMPO) and 5-spirocyclopentyl-pyrroline N-oxide (CPPO), are most preferred compared to the methylcarbamoyl-substituted nitrones. This study suggests that the use of specific spin traps for efficient trapping of HO2* could pave the way toward improved radical detection and antioxidant protection. PMID:17845014

  2. Potential routes to carbon inclusion in apatite minerals: a DFT study

    NASA Astrophysics Data System (ADS)

    Rabone, J. A. L.; de Leeuw, N. H.

    2007-09-01

    We have conducted a computational study to investigate a number of possible routes for the incorporation of carbon into apatites. Using density functional theory (DFT) we have calculated geometry optimised structures for fluor- and hydroxy-apatites with and without various substitutions. We have studied several different carbonate substitutions, pure carbonate and pure formate apatites, neutral carbon atoms occupying interstices, and carbon dioxide and acetylene absorbed in oxyapatite.

  3. A Comprehensive Study of Copper Guanidine Quinoline Complexes: Predicting the Activity of Catalysts in ATRP with DFT.

    PubMed

    Rösener, Thomas; Bienemann, Olga; Sigl, Kerstin; Schopp, Nora; Schnitter, Fabian; Flörke, Ulrich; Hoffmann, Alexander; Döring, Artjom; Kuckling, Dirk; Herres-Pawlis, Sonja

    2016-09-12

    Copper complexes of the hybrid guanidine ligands 1,3-dimethyl-N-(quinolin-8-yl)-imidazolidin-2-imine (DMEGqu) and 1,1,3,3-tetramethyl-2-(quinolin-8-yl)-guanidine (TMGqu) have been studied comprehensively with regard to their structural and electrochemical properties and their activity in atom transfer radical polymerization (ATRP). A simple analysis of the molecular structures of the complexes gives no indication about their activity in ATRP; however, with the help of DFT and NBO analysis the influence of particular coordinating donors on the electrochemical properties could be fully elucidated. With an adequate DFT methodology and newly applied theoretical isodesmic reactions it was possible to predict the relative position of the redox potentials of copper complexes containing DMEGqu and TMGqu ligands. In addition, predictions could be made as to whether the complexes of DMEGqu or TMGqu are more active in ATRP. Four new Cu(I) complexes were tested in standard ATRP reactions and kinetically investigated both in bulk and in solution. It could be proven that complexes featuring DMEGqu possess a lower redox potential and are more active in ATRP, although the tetramethylguanidine moiety represents the stronger donor.

  4. A Comprehensive Study of Copper Guanidine Quinoline Complexes: Predicting the Activity of Catalysts in ATRP with DFT.

    PubMed

    Rösener, Thomas; Bienemann, Olga; Sigl, Kerstin; Schopp, Nora; Schnitter, Fabian; Flörke, Ulrich; Hoffmann, Alexander; Döring, Artjom; Kuckling, Dirk; Herres-Pawlis, Sonja

    2016-09-12

    Copper complexes of the hybrid guanidine ligands 1,3-dimethyl-N-(quinolin-8-yl)-imidazolidin-2-imine (DMEGqu) and 1,1,3,3-tetramethyl-2-(quinolin-8-yl)-guanidine (TMGqu) have been studied comprehensively with regard to their structural and electrochemical properties and their activity in atom transfer radical polymerization (ATRP). A simple analysis of the molecular structures of the complexes gives no indication about their activity in ATRP; however, with the help of DFT and NBO analysis the influence of particular coordinating donors on the electrochemical properties could be fully elucidated. With an adequate DFT methodology and newly applied theoretical isodesmic reactions it was possible to predict the relative position of the redox potentials of copper complexes containing DMEGqu and TMGqu ligands. In addition, predictions could be made as to whether the complexes of DMEGqu or TMGqu are more active in ATRP. Four new Cu(I) complexes were tested in standard ATRP reactions and kinetically investigated both in bulk and in solution. It could be proven that complexes featuring DMEGqu possess a lower redox potential and are more active in ATRP, although the tetramethylguanidine moiety represents the stronger donor. PMID:27505859

  5. DFT and post-DFT studies of metallic MXY3-type compounds for low temperature TE applications

    NASA Astrophysics Data System (ADS)

    Bilal, M.; Saifullah; Ahmad, Iftikhar; Jalali-Asadabadi, S.; Ahmad, Rashid; Shafiq, M.

    2016-10-01

    In this paper, thermoelectric properties of carbon and nitrogen based twenty metallic antiperovskites MXY3 (M=Al, Ga, Ir, Mg, Pd, Pt, Rh; X=C, N; Y=Mn, Ni, Sc, Ti, Cr, Fe) using ab-initio density functional theory and post-DFT Boltzmann's techniques are investigated. The electronic properties of these compounds are also discussed. We find high values of Seebeck coefficient and small values of electronic thermal conductivity for AlCTi3, AlNSc3, AlCNi3, AlNTi3, GaCCr3 and MgCNi3 between -0.25 and 0.25 eV chemical potential. These results show high dimensionless figure of merit in metallic materials and therefore, we predict these materials can be potential candidates for low temperature thermoelectric applications.

  6. Nuclear magnetic resonance, vibrational spectroscopic studies, physico-chemical properties and computational calculations on (nitrophenyl) octahydroquinolindiones by DFT method.

    PubMed

    Pasha, M A; Siddekha, Aisha; Mishra, Soni; Azzam, Sadeq Hamood Saleh; Umapathy, S

    2015-02-01

    In the present study, 2'-nitrophenyloctahydroquinolinedione and its 3'-nitrophenyl isomer were synthesized and characterized by FT-IR, FT-Raman, (1)H NMR and (13)C NMR spectroscopy. The molecular geometry, vibrational frequencies, (1)H and (13)C NMR chemical shift values of the synthesized compounds in the ground state have been calculated by using the density functional theory (DFT) method with the 6-311++G (d,p) basis set and compared with the experimental data. The complete vibrational assignments of wave numbers were made on the basis of potential energy distribution using GAR2PED programme. Isotropic chemical shifts for (1)H and (13)C NMR were calculated using gauge-invariant atomic orbital (GIAO) method. The experimental vibrational frequencies, (1)H and (13)C NMR chemical shift values were found to be in good agreement with the theoretical values. On the basis of vibrational analysis, molecular electrostatic potential and the standard thermodynamic functions have been investigated.

  7. Interaction of Boron Clusters with Oxygen: a DFT Study

    NASA Astrophysics Data System (ADS)

    Salavitabar, Kamron; Boggavarapu, Kiran; Kandalam, Anil

    A controlled combustion involving aluminum nanoparticles has often been the focus of studies in the field of solid fuel propellants. However very little focus has been given to the study of boron nanoparticles in controlled combustion. In contrast to aluminum nanoclusters, boron nanoclusters (Bn) are known to exhibit a planar geometries even at the size of n = 19 - 20, and thus offer a greater surface area for interaction with oxygen. Earlier experimental studies have shown that boron nanoclusters exhibit different reactivity with oxygen depending on their size and charge. In this poster, we present our recent density functional theory based results, focusing on the reactivity patterns of neutral and negatively charged B5 cluster with On, where n = 1 - 5; and B6 cluster with On (n = 1 - 2). The effect of charge on the reactivity of boron cluster, variation in the stability of product clusters, i e., neutral and negatively charged B5On (n = 1 - 5) and B6On (n = 1 - 2) are also examined. Financial Support from West Chester University Foundation under FaStR grant is acknowledged.

  8. a Comprehensive DFT Study of Zinc Oxide in Different Phases

    NASA Astrophysics Data System (ADS)

    Ul Haq, Bakhtiar; Afaq, A.; Ahmed, R.; Naseem, S.

    2012-06-01

    A density functional study for structural and electronic properties of Zinc Oxide (ZnO), in wurtzite, rock salt and zinc-blende phases has been performed using full potential-linearized augmented plane wave/linearized augmented plane wave plus local ideal orbital (FP-LAPW/L(APW+lo) approach as realized in WIEN2k code. To approximate exchange correlation energy and corresponding potential, a special GGA parameterized by Wu-Cohen has been implemented. Our results of lattice constants, bulk moduli as well as for internal parameter with GGA-WC are found to be more reliable. This study reveals that value of internal parameter decreases with increasing volume whereas computed electronic band structure confirms the direct band gap behavior of ZnO in B4 and B3 phases while indirect band gap behavior in B1 phase. Moreover, two fold degeneracy at the maxima of valence band for B4 and B1 phases whereas three fold for B3 is observed. A detailed comparison with experimental and other first principles studies is also made.

  9. DFT and TD-DFT study on geometries, electronic structures and electronic absorption of some metal free dye sensitizers for dye sensitized solar cells

    NASA Astrophysics Data System (ADS)

    Mohr, T.; Aroulmoji, V.; Ravindran, R. Samson; Müller, M.; Ranjitha, S.; Rajarajan, G.; Anbarasan, P. M.

    2015-01-01

    The geometries, electronic structures, polarizabilities and hyperpolarizabilities of 2-hydroxynaphthalene-1,4-dione (henna1), 3-(5-((1E)-2-(1,4-dihydro-1,4-dioxonaphthalen-3-yloxy) vinyl) thiophen-2-yl)-2-isocyanoacrylic acid (henna2) and anthocyanin dye sensitizers were studied based on density functional theory (DFT) using the hybrid functional B3LYP. The Ultraviolet-Visible (UV-Vis) spectrum was investigated by using a hybrid method which combines the properties and dynamics of many-body in the presence of time-dependent (TD) potentials, i.e. TDSCF-DFT (B3LYP). Features of the electronic absorption spectrum in the visible and near-UV regions were plotted and assigned based on TD-DFT calculations. Due to the absorption, bands of the metal-organic compound are n → π* present. The calculated results suggest that the three lowest energy excited states of the investigated dye sensitizers are due to photoinduced electron transfer processes. The interfacial electron transfer between semiconductor TiO2 electrode and dye sensitizer is owing to an electron injection process from excited dye to the semiconductor's conduction band. The role of linking the henna1 dye with a carboxylic acid via a thiophene bridge was analyzed. The results are that using a stronger π-conjugate bridge as well as a strong donator and acceptor group enhances the efficiency.

  10. FT-Raman, FT-IR spectroscopic and DFT studies of hexaphenoxycyclotriphosphazene

    NASA Astrophysics Data System (ADS)

    Furer, V. L.; Vandyukov, A. E.; Padie, C.; Majoral, J. P.; Caminade, A. M.; Kovalenko, V. I.

    2016-07-01

    The FTIR and FT Raman measurements of zero Gc0‧ -H and first Gc1‧ -H generations of phosphorus dendrimer built from cyclotriphosphazene core with phenoxy and deuterophenoxy terminal groups have been performed. In order to evaluate how much the frequencies, shift when changing the electronics of the system the FTIR and FT Raman spectra of phosphorus‒containing dendron with five terminal oxybenzaldehyde and one ester function Gci‧ have been also studied. Structural optimization and normal mode analysis were obtained for Gc0‧ -H and Gc0‧ -D by the density functional theory (DFT). It is discovered that dendrimer molecule exists in a stable conformation with six phenoxy terminal groups spaced above and below the flat cyclotriphosphazene core. Optimized geometric bond length and angles obtained by DFT show good agreement with a previously-published X-ray study. The phenoxy terminal groups are characterized by the well-defined line at 993 cm-1 in the experimental Raman spectrum of Gc0‧ -H and by line at 960 cm-1 in the Raman spectrum of Gc0‧ -D. Relying on DFT calculations a complete vibrational assignment is proposed for the studied dendrimers. The frequencies and relative intensity of the bands at 1589, 1487 cm-1 in the IR spectra show marked difference in dependence of the substituents on the aromatic ring.

  11. Diffusion of anthracene derivatives on Cu(111) studied by STM and DFT

    NASA Astrophysics Data System (ADS)

    Wyrick, Jonathan; Bartels, Ludwig; Einstein, Theodore

    2014-03-01

    Substituted anthracenes have drawn attention due to their ability to diffuse uniaxially on a Cu(111) surface. We compare anthracene to three of its derivatives whose 9,10 hydrogens are replaced by elements of the chalcogen group that act as linkers binding the molecules to a Cu(111) substrate. DFT calculations shed light on STM imaging and diffusion studies on the three substituted species. We present an analysis of the DFT results in which energetic contributions to the diffusion barriers are partitioned among the Kohn-Sham orbitals, allowing us to make assignments as to how each orbital affects diffusion for each species and draw comparisons between them. Present address: Center for Nanoscale Science and Technology, NIST, Gaithersburg, MD.

  12. Cooperativity in bifurcated lithium-bonded complexes: A DFT study

    NASA Astrophysics Data System (ADS)

    Solimannejad, Mohammad; Rezaie, Forough; Esrafili, Mehdi D.

    2016-07-01

    Density functional theory calculations at the B3LYP/6-311++G(d,p) level are performed to analyze intermolecular interactions in complexes connected via bifurcated lithium bonds. Linear (LiN(CHO)2)2-7 clusters are chosen as a model system in the present study. Stabilization energies for these clusters are in the range of -42.59 to -334.05 kcal mol-1. Cooperativity effects based on energy and dipole moment are computed for these clusters. The contraction of Li⋯O binding distances along with an increase in the magnitude of stabilization energies with the cluster size can be regarded as a signature of cooperative effects in these systems.

  13. DFT studies of ESR parameters for N-O centered radicals, N-alkoxyaminyl and aminoxyl radicals.

    PubMed

    Tanaka, Akio; Nakashima, Kouichi

    2011-09-01

    Theoretical calculations of ESR parameters for aminoxyl radicals have been widely studied using the density functional theory (DFT) calculations. However, the isomer N-alkoxyaminyl radicals have been limitedly studied. With the use of experimental data for 46 N-alkoxyaminyl and 38 aminoxyl radicals, the isotropic (14)N hyperfine coupling constants (aN ) and g-factors have been theoretically estimated by several DFT calculations. The best calculation scheme of aN for N-alkoxyaminyl radicals was PCM/B3LYP/6-31 + + G(d,p) (R(2) = 0.9519, MAE = 0.034 mT), and that for aminoxyl radicals was PCM/BHandHLYP/6-31 + + G(3df,3pd) (R(2) = 0.9336, MAE = 0.057 mT). For aminoxyl radicals, the solvation models in calculations enhanced the accuracy of reproducibility. In contrast, for N-alkoxyaminyl radicals the calculations with solvation models provided no improvement. The differences in the best functionals between two types of radicals were thought to come from the contribution ratios of neutral and dipolar canonical structures in resonance forms. The aN for N-alkoxyaminyl radicals that were stabilized by small contribution of dipolar canonical structures could be precisely reproduced by B3LYP with only 20% HF exact exchange. In contrast, the aN for aminoxyl radicals stabilized by large contribution of dipolar canonical structures was well reproduced by BHandHLYP with 50% HF exchange. The best calculation scheme of g-factors was IEFPCM/B3LYP/6-31 + G(d,p) (R(2) = 0.9767, MAE = 0.0001) for not only aminoxyl but also N-alkoxyaminyl radicals.

  14. DFT studies of the phenol adsorption on boron nitride sheets.

    PubMed

    Hernández, Jose Mario Galicia; Cocoletzi, Gregorio Hernández; Anota, Ernesto Chigo

    2012-01-01

    We perform first principles total energy calculations to investigate the atomic structures of the adsorption of phenol (C(6)H(5)OH) on hexagonal boron nitride (BN) sheets. Calculations are done within the density functional theory as implemented in the DMOL code. Electron-ion interactions are modeled according to the local-spin-density-approximation (LSDA) method with the Perdew-Wang parametrization. Our studies take into account the hexagonal h-BN sheets and the modified by defects d-BN sheets. The d-BN sheets are composed of one hexagon, three pentagons and three heptagons. Five different atomic structures are investigated: parallel to the sheet, perpendicular to the sheet at the B site, perpendicular to the sheet at the N site, perpendicular to the central hexagon and perpendicular to the B-N bond (bridge site). To determine the structural stability we apply the criteria of minimum energy and vibration frequency. After the structural relaxation phenol molecules adsorb on both h-BN and d-BN sheets. Results of the binding energies indicate that phenol is chemisorbed. The polarity of the system increases as a consequence of the defects presence which induces transformation from an ionic to covalent bonding. The elastic properties on the BN structure present similar behavior to those reported in the literature for graphene. PMID:21523546

  15. Hydroxide Degradation Pathways for Imidazolium Cations. A DFT Study

    SciTech Connect

    Long, H.; Pivovar, B.

    2014-05-15

    Imidazolium cations are promising candidates as covalently tetherable cations for application in anion exchange membranes. They have generated specific interest in alkaline membrane fuel cell applications where ammonium-based cations have been the most commonly applied but have been found to be susceptible to hydroxide attack. In the search for high stability cations, a detailed understanding of the degradation pathways and reaction barriers is required. In this work, we investigate imidazolium and benzimidazolium cations in the presence of hydroxide using density functional theory calculations for their potential in alkaline membrane fuel cells. Moreover, the dominant degradation pathway for these cations is predicted to be the nucleophilic addition–elimination pathway at the C-2 atom position on the imidazolium ring. Steric interferences, introduced by substitutions at the C-2, C-4, and C-5 atom positions, were investigated and found to have a significant, positive impact on calculated degradation energy barriers. Benzimidazolium cations, with their larger conjugated systems, are predicted to degrade much faster than their imidazolium counterparts. Our results provide important insight into designing stable cations for anion exchange membranes. Some of the molecules studied have significantly increased degradation energy barriers suggesting that they could possess significantly improved (several orders of magnitude) durability compared to traditional cations and potentially enable new applications.

  16. Intramolecular hydrogen bonds involving organic fluorine in the derivatives of hydrazides: an NMR investigation substantiated by DFT based theoretical calculations.

    PubMed

    Mishra, Sandeep Kumar; Suryaprakash, N

    2015-06-21

    The rare examples of intramolecular hydrogen bonds (HB) of the type the N-H∙∙∙F-C, detected in a low polarity solvent in the derivatives of hydrazides, by utilizing one and two-dimensional solution state multinuclear NMR techniques, are reported. The observation of through-space couplings, such as, (1h)JFH, and (1h)JFN, provides direct evidence for the existence of intra-molecular HB. Solvent induced perturbations and the variable temperature NMR experiments unambiguously establish the presence of intramolecular HB. The existence of multiple conformers in some of the investigated molecules is also revealed by two dimensional HOESY and (15)N-(1)H HSQC experiments. The (1)H DOSY experimental results discard any possibility of self or cross dimerization of the molecules. The derived NMR experimental results are further substantiated by Density Function Theory (DFT) based Non Covalent Interaction (NCI), and Quantum Theory of Atom in Molecule (QTAIM) calculations. The NCI calculations served as a very sensitive tool for detection of non-covalent interactions and also confirm the presence of bifurcated HBs.

  17. Gas Phase Elimination Kinetics of Methyl Mandelate: Experimental and DFT Studies

    NASA Astrophysics Data System (ADS)

    Rotinov, Alexandra; Escalante, Luz; Ramirez, Beatriz; Pereira, Desiree; Córdova, Tania; Chuchani, Gabriel

    2009-10-01

    The gas phase elimination kinetics of racemic methyl mandelate was determined in a static system, and yielded on decomposition benzaldehyde, methanol, and carbon monoxide. The reaction was homogeneous, unimolecular, and follows a first-order law in the temperature range 379.5-440 °C and pressure range of 21.5-71.1 Torr. The variation of the rate coefficient with temperature is expressed by the following Arrhenius equation: log k1 = (12.70 ± 0.14) - (206.5 ± 1.9) kJ/mol (2.303RT)-1. The theoretical estimations of the kinetics and thermodynamics parameters were carried out using DFT methods B3LYP, B3PW91, MPW1PW91, and PBEPBE. Calculation results are in reasonably good agreement with the experimental energy and enthalpy values when using the PBEPBE DFT functional. However, regarding the entropy of activation, the MPW1PW91 functional is more adequate to describe the reaction. These calculations imply a molecular concerted nonsynchronous mechanism involving a two-step process, where the formation of the unstable α-lactone intermediate is the rate-determining factor. The lactone intermediate rapidly decarbonylates to produce benzaldehyde and carbon monoxide. The transition state is late in the reaction coordinate, resembling the lactone configuration.

  18. Conformation of eight-membered benzoannulated lactams by combined NMR and DFT studies.

    PubMed

    Witosińska, Agnieszka; Musielak, Bogdan; Serda, Paweł; Owińska, Maria; Rys, Barbara

    2012-11-01

    The title compounds were synthesized, and their structure and conformational behavior in solution (NMR and DFT), in the gas phase (DFT), and, for some of them, in the solid state (X-ray) were investigated. The variable-temperature NMR spectra were employed to determine the conformational equilibria and the activation energy of the conformational changes of the eight-membered ring. The coalescence effects are assigned to racemization of the chiral ground-state conformation with a ring inversion barrier in the range of 38-100 kJ mol(-1) depending on the relative setting of the two strong conformational constraints: benzoannulation and the amide function. The second conformational process, interconversion between two different conformers, in the molecules of benzo[c]azocin-3-one, benzo[d]azocin-2-one, and benzo[d]azocin-4-one was observed. The natures of the conformers observed in solution were elucidated by analysis of experimental and calculated NMR data. The present results are discussed in conjunction with previous experimental and theoretical data on (Z,Z)-cyclooctadienes and their benzo analogues.

  19. 13C CPMAS NMR studies and DFT calculations of triterpene xylosides isolated from Actaea racemosa

    NASA Astrophysics Data System (ADS)

    Jamróz, Marta K.; Paradowska, Katarzyna; Gliński, Jan A.; Wawer, Iwona

    2011-05-01

    13C CPMAS NMR spectra of four triterpene glycosides: cimigenol xyloside ( 1), 26-deoxyactein ( 2), cimicifugoside H-1 ( 3) and 24-acethylhydroshengmanol xyloside ( 4) were recorded and analyzed to characterize their solid-state structure. Experimental data were supported by theoretical calculations of NMR shielding constants with the GIAO/6-31G**-su1 approach. A number of methods for the conformational search and a number of functionals for the DFT calculations were applied to ( 1). The best method was proven to be MMFF or MMFFAQ for the conformational search and the PBE1PBE functional for the DFT calculations. Extra calculations simulating C16 dbnd O⋯HOH hydrogen bond yield the isotropic shielding closer to the experimental solid-state value. For all the compounds CP kinetics parameters were calculated using either the I-S or the I-I*-S model. The analysis of CP kinetics data for methyl groups revealed differences in the T2 time constant for two methyl groups (C29 and C30) linked at C4.

  20. Sorption speciation of lanthanides/actinides on minerals by TRLFS, EXAFS and DFT studies: a review.

    PubMed

    Tan, Xiaoli; Fang, Ming; Wang, Xiangke

    2010-11-17

    Lanthanides/actinides sorption speciation on minerals and oxides by means of time resolved laser fluorescence spectroscopy (TRLFS), extended X-ray absorption fine structure spectroscopy (EXAFS) and density functional theory (DFT) is reviewed in the field of nuclear disposal safety research. The theoretical aspects of the methods are concisely presented. Examples of recent research results of lanthanide/actinide speciation and local atomic structures using TRLFS, EXAFS and DFT are discussed. The interaction of lanthanides/actinides with oxides and minerals as well as their uptake are also of common interest in radionuclide chemistry. Especially the sorption and inclusion of radionuclides into several minerals lead to an improvement in knowledge of minor components in solids. In the solid-liquid interface, the speciation and local atomic structures of Eu(III), Cm(III), U(VI), and Np(IV/VI) in several natural and synthetic minerals and oxides are also reviewed and discussed. The review is important to understand the physicochemical behavior of lanthanides/actinides at a molecular level in the natural environment.

  1. Synthesis, crystal structure, spectral analysis and DFT computational studies on a novel isoindoline derivative

    NASA Astrophysics Data System (ADS)

    Evecen, Meryem; Duru, Gülcan; Tanak, Hasan; Ağar, Ayşen Alaman

    2016-08-01

    The isoindoline compound, 2-(3-chloro-4-(4-chlorophenoxy)phenyl)isoindoline-1,3-dione, has been synthesized and characterized by FT-IR, UV-Vis and X-ray single-crystal determination. The compound crystallizes in the monoclinic space group P21/c with a = 20.441 (3) Å, b = 4.0258 (4) Å, c = 23.836 (2) Å, β = 121.918 (7)° and Z = 4. The molecular structure and vibrational frequencies in the ground state were calculated using the density functional theory method (B3LYP) with 6-311++G(d,p) basis set. The results obtained from the optimization and vibrational analyses are agree with the experimental results. Using the TD-DFT method, electronic absorption spectra have been calculated, and they are compatible with the experimental ones. The electric dipole moment (μ), polarizability (α) and the first hyperpolarizability (β) values of the compound were calculated theoretically. The first hyperpolarizability of the molecule shows that the compound can be a good candidate of nonlinear optical material. In addition, DFT calculations of the compound, atomic charges, molecular electrostatic potential and thermodynamic properties were also performed at B3LYP/6-311++G(d,p) level of theory.

  2. The crystal structure of sulfamethoxazole, interaction with DNA, DFT calculation, and molecular docking studies

    NASA Astrophysics Data System (ADS)

    Das, Dipankar; Sahu, Nilima; Roy, Suman; Dutta, Paramita; Mondal, Sudipa; Torres, Elena L.; Sinha, Chittaranjan

    2015-02-01

    Sulfamethoxazole (SMX) [4-amino-N-(5-methyl-1,2-oxazol-3-yl)benzenesulfonamide] is structurally established by single crystal X-ray diffraction measurement. The crystal packing shows H-bonded 2D polymer through N(7)sbnd H(7A)---O(2), N(7)sbnd H(7B)---O(3), N(1)sbnd H(1)---N(2), C(5)sbnd H(5)---O(3)sbnd S(1) and N(7)sbnd (H7A)---O(2)sbnd S(1). Density Functional Theory (DFT) and Time Dependent-DFT (TD-DFT) computations of optimized structure of SMX determine the electronic structure and has explained the electronic spectral transitions. The interaction of SMX with CT-DNA has been studied by absorption spectroscopy and the binding constant (Kb) is 4.37 × 104 M-1. The in silico test of SMX with DHPS from Escherichia coli and Streptococcus pneumoniae helps to understand drug metabolism and accounts the drug-molecule interactions. The molecular docking of SMX-DNA also helps to predict the interaction feature.

  3. Theoretical study of classical acetylcholinesterase inhibitors

    NASA Astrophysics Data System (ADS)

    Nascimento, Érica C. M.; Martins, João B. L.; dos Santos, Maria L.; Gargano, R.

    2008-06-01

    Semi-empirical, RHF and DFT calculations were carried out to study well known acetylcholinesterase inhibitors, i.e., tacrine, donepezil, galantamine, physostigmine, and tacrine dimer (bis-tacrine). Electronic and structural parameters were used in order to correlate the acetylcholinesterase inhibition activity with their molecular structure. The optimized geometries of these drugs were analyzed by multivariate PCA statistical method. Frontier orbital energies (HOMO and LUMO), the (HOMO-LUMO) gap and the distance between more acidic hydrogen species were used to determine principal components. The PCA results indicated that these drugs were ordered into three groups according to the first principal component: galantamine/physostigmine, donepezil/tacrine dimer and tacrine.

  4. Low frequency collective vibrational spectra of zwitterionic glycine studied by DFT

    NASA Astrophysics Data System (ADS)

    Ma, Shi Hua; Chen, Hua; Cui, Yi Ping

    2012-12-01

    Fourier transform infrared spectrometer and THz-TDS were used to obtain the experimental spectrum of glycine below 600 cm-1, and theoretical results of one or more zwitterionic glycine were calculated by DFT at the basis set of b31yp 6- 31+g(d,p) level based on Gaussian 03 software package in FIR region. There is more reasonable qualitative agreement between the calculated data of crystalline and observed line positions. Detailed assignments of the observed vibrational frequencies are discussed and the origins of some frequencies are analyzed by contrast. The low frequency collective mode of zwitterionic glycine is affected greatly by the intermolecular interaction and hydrogen-bonding effects and their vibrational modes are collective motion.

  5. Electronic structures of hydrogen functionalized carbon nanotube: Density functional theory (DFT) study

    NASA Astrophysics Data System (ADS)

    Tachikawa, Hiroto; Iyama, Tetsuji; Kawabata, Hiroshi

    2016-05-01

    Electronic structures and formation mechanism of hydrogen functionalized carbon nanotube (CNT) have been investigated by means of density functional theory (DFT) method. The mechanism of hydrogen addition reaction to the CNT surface was also investigated. Pure and boron-nitrogen (BN) substituted CNT (denoted by CNT and BN-CNT, respectively) were examined as the carbon nanotubes. It was found that the additions of hydrogen atom to B (boron atom) and C (carbon atom) sites of BN-CNT proceed without activation barrier, whereas the hydrogenation of N (nitrogen atom) site needs the activation energy. The electronic states of hydrogen functionalized CNT and BN-CNT were discussed on the basis of theoretical results.

  6. Synthesis and DFT Study of a Diphenylsilanone-Bridged Dimolybdenum Complex.

    PubMed

    Alvarez, M Angeles; García, M Esther; García-Vivó, Daniel; Menéndez, Sonia; Ruiz, Miguel A

    2016-06-20

    Reaction of the 30-electron benzylidyne complex [Mo2 Cp2 (μ-CPh)(μ-PCy2 )(μ-CO)] with excess Ph2 SiH2 under visible-UV irradiation yields the silylene-bridged complex [Mo2 Cp2 (μ-CPh)(μ-PCy2 )(μ-SiPh2 )]. This compound undergoes selective oxidation with O2 to give the unsaturated complex [Mo2 Cp2 (μ-CPh)(μ-PCy2 )(μ-κ(1) :κ(1) -OSiPh2 )], which contains an unprecedented bridging diphenylsilanone ligand, as confirmed by X-ray diffraction analysis and DFT calculations. The bonding within the central Mo2 SiO ring of this complex approaches the extreme description of a dimetallacyclosiloxane according to the relevant solid-state bond lengths and theoretical calculations. PMID:27124667

  7. Conformational isomerism of pyridoxal. Infrared matrix isolation and theoretical studies

    NASA Astrophysics Data System (ADS)

    Kwiatek, Anna; Mielke, Zofia

    2015-01-01

    A combined matrix isolation FTIR and theoretical DFT/B3LYP/6-311++G(2p,2d) study of pyridoxal was performed. The calculations resulted in five stable PLHB conformers stabilized by intramolecular Osbnd H⋯O bonding between phenolic OH and carbonyl Cdbnd O groups and another thirteen conformers in which OH or/and aldehyde groups are rotated by 180° around CO or/and CC bonds leading, respectively, to formation of PLO, PLA and PLOA conformers. The analysis of the spectra of the as-deposited matrix indicated that two most stable PLHB1 and PLHB2 conformers with intramolecular hydrogen bond are present in the matrix. The exposure of the PL/Ar matrix to mercury lamp radiation (λ > 345 nm) induced conformational change of PLHB isomers to PLOA ones.

  8. Conformational isomerism of pyridoxal. Infrared matrix isolation and theoretical studies.

    PubMed

    Kwiatek, Anna; Mielke, Zofia

    2015-01-25

    A combined matrix isolation FTIR and theoretical DFT/B3LYP/6-311++G(2p,2d) study of pyridoxal was performed. The calculations resulted in five stable PLHB conformers stabilized by intramolecular O-H⋯O bonding between phenolic OH and carbonyl C=O groups and another thirteen conformers in which OH or/and aldehyde groups are rotated by 180° around CO or/and CC bonds leading, respectively, to formation of PLO, PLA and PLOA conformers. The analysis of the spectra of the as-deposited matrix indicated that two most stable PLHB1 and PLHB2 conformers with intramolecular hydrogen bond are present in the matrix. The exposure of the PL/Ar matrix to mercury lamp radiation (λ>345 nm) induced conformational change of PLHB isomers to PLOA ones. PMID:25173527

  9. Why thiocolchicine does not undergo photochemical isomerization: A theoretical study

    NASA Astrophysics Data System (ADS)

    Cacelli, Ivo; D'Auria, Maurizio; Villani, Vincenzo

    2008-06-01

    The reasons why colchicine undergoes photochemical cyclization to give lumicolchicine, whereas thiocolchicine does not, are investigated by theoretical methods. The relative stability of the reagent and of the products is computed at DFT level of theory and indicates that such a photochemical reaction is energetically possible. The photochemical reaction path of thiocolchicine is studied within the relaxed energy scan, at MC-SCF level of theory. The results are again rather similar to those of colchicine. Finally, the spin-orbit coupling between S 1 and T 1 has been computed and are two order of magnitude greater than those of colchicine, that makes plausible that spin-orbit is the main reason of the observed reaction quenching.

  10. Conformational isomerism of pyridoxal. Infrared matrix isolation and theoretical studies.

    PubMed

    Kwiatek, Anna; Mielke, Zofia

    2015-01-25

    A combined matrix isolation FTIR and theoretical DFT/B3LYP/6-311++G(2p,2d) study of pyridoxal was performed. The calculations resulted in five stable PLHB conformers stabilized by intramolecular O-H⋯O bonding between phenolic OH and carbonyl C=O groups and another thirteen conformers in which OH or/and aldehyde groups are rotated by 180° around CO or/and CC bonds leading, respectively, to formation of PLO, PLA and PLOA conformers. The analysis of the spectra of the as-deposited matrix indicated that two most stable PLHB1 and PLHB2 conformers with intramolecular hydrogen bond are present in the matrix. The exposure of the PL/Ar matrix to mercury lamp radiation (λ>345 nm) induced conformational change of PLHB isomers to PLOA ones.

  11. Collector attachment to lead-activated sphalerite - Experiments and DFT study on pH and solvent effects

    NASA Astrophysics Data System (ADS)

    Sarvaramini, A.; Larachi, F.; Hart, B.

    2016-03-01

    The interactions of diisobutyl dithiophosphinate with bare (un-activated) and lead-activated sphalerite were studied both experimentally and through DFT simulations. Sphalerite activated by lead in acidic and alkaline conditions showed considerably greater affinity for diisobutyl dithiophosphinate adsorption than bare sphalerite. Experimental observations supported by DFT simulations concur in that attachment of the solvated collector to the activated sphalerite surface is through adsorbed lead cations or lead hydroxides where as for the bare sphalerite, the collector was most stable in its solvated state and not as an adsorbed specie. Accounting for solvation effects by including a swarm of water molecules in DFT simulations was necessary to infer plausible surface interactions between collector, solvent, and bare or lead-activated sphalerite. The experimental data and DFT simulations indicate, affinity of the collector toward surface-adsorbed lead species was predicted to form stable covalent bonds between collector sulfur atoms and lead.

  12. Putting DFT to the test: a first-principles study of electronic, magnetic, and optical properties of Co3O4.

    PubMed

    Singh, Vijay; Kosa, Monica; Majhi, Koushik; Major, Dan Thomas

    2015-01-13

    First-principles density functional theory (DFT) and a many-body Green's function method have been employed to elucidate the electronic, magnetic, and photonic properties of a spinel compound, Co3O4. Co3O4 is an antiferromagnetic semiconductor composed of cobalt ions in the Co(2+) and Co(3+) oxidation states. Co3O4 is believed to be a strongly correlated material, where the on-site Coulomb interaction (U) on Co d orbitals is presumably important, although this view has recently been contested. The suggested optical band gap for this material ranges from 0.8 to 2.0 eV, depending on the type of experiments and theoretical treatment. Thus, the correlated nature of the Co d orbitals in Co3O4 and the extent of the band gap are still under debate, raising questions regarding the ability of DFT to correctly treat the electronic structure in this material. To resolve the above controversies, we have employed a range of theoretical methods, including pure DFT, DFT+U, and a range-separated exchange-correlation functional (HSE06) as well as many-body Green's function theory (i.e., the GW method). We compare the electronic structure and band gap of Co3O4 with available photoemission spectroscopy and optical band gap data and confirm a direct band gap of ca. 0.8 eV. Furthermore, we have also studied the optical properties of Co3O4 by calculating the imaginary part of the dielectric function (Im(ε)), facilitating direct comparison with the measured optical absorption spectra. Finally, we have calculated the nearest-neighbor interaction (J1) between Co(2+) ions to understand the complex magnetic structure of Co3O4. PMID:26574204

  13. Molecular structure, vibrational spectra and quantum chemical MP2/DFT studies toward the rational design of hydroxyurea imprinted polymer

    NASA Astrophysics Data System (ADS)

    Prasad, Bhim Bali; Rai, Garima

    2013-03-01

    In this study, both experimental and theoretical vibrational spectra of template (hydroxyurea, HU), monomer (N-(4,6-bisacryloyl amino-[1,3,5] triazine-2-yl-)-acryl amide, TAT), and HU-TAT complexes were compared and these were respectively found to be in good agreement. Binding energies of HU, when complexed with different monomers, were computed using second order Moller Plesset theory (MP2) at 6-311++G(d,p) level both in the gas as well as solution phases. HU is an antineoplastic agent extensively being used in the treatment of polycythaemia Vera and thrombocythemia. It is also used to reduce the frequency of painful attacks in sickle cell anemia. It has antiretroviral property in disease like AIDS. All spectral characterizations were made using Density Functional Theory (DFT) at B3LYP employing 6-31+g(2d, 2p) basis set. The theoretical values for 13C and 1H NMR chemical shifts were found to be in accordance with the corresponding experimental values. Of all different monomers studied for the synthesis of molecularly imprinted polymer (MIP) systems, the monomer TAT (2 mol) was typically found to have a best binding score requisite for complexation with HU (1 mol) at the ground state.

  14. Identification of structural and spectral features of synthesized cyano-stilbene dye derivatives: a comparative experimental and DFT study.

    PubMed

    Karabacak, M; Asiri, A M; Al-Youbi, A O; Qusti, A H; Cinar, M

    2014-01-01

    The synthesized three dye derivatives of cyano-stilbene monomer were identified by experimental spectroscopic techniques and density functional approach. The optimized geometrical structure, vibrational and electronic transitions along with the nonlinear optical (NLO) properties of those compounds were presented in this study. The vibrational spectra of investigated compounds were recorded in solid state with FT-IR and FT-Raman spectrometry in the range of 4000-400 cm(-1) and 3600-50 cm(-1), respectively. The theoretical ground state equilibrium conformations and vibrational wavenumbers were carried out by using density functional method with 6-311G(d,p) basis set. Assignments of the fundamental vibrational modes were examined on the basis of the measured data and total energy distribution (TED) of the vibrational modes, calculated with scaled quantum mechanical (SQM) method. The UV absorption spectra of monomers were observed in the range of 200-600 nm in chloroform, acetonitrile and toluene, and time dependent DFT method was used to obtain the electronic properties. The linear polarizability and first hyperpolarizability of the studied molecules indicates that the title compounds can be used as a good nonlinear optical material. A detailed description of spectroscopic behaviors of compounds was given based on the comparison of experimental measurements and theoretical computations. PMID:24177881

  15. Natural carotenoids as nanomaterial precursors for molecular photovoltaics: a computational DFT study.

    PubMed

    Ruiz-Anchondo, Teresita; Flores-Holguín, Norma; Glossman-Mitnik, Daniel

    2010-06-24

    In this work several natural carotenoids were studied as potential nanomaterial precursors for molecular photovoltaics. M05-2X/6-31+G(d,p) level of theory calculations were used to obtain their molecular structures, as well as to predict the infrared (IR) and ultraviolet (UV-Vis) spectra, the dipole moment and polarizability, the pKa, and the chemical reactivity parameters (electronegativity, hardness, electrophilicity and Fukui functions) that arise from Conceptual DFT. The calculated values were compared with the available experimental data for these molecules and discussed in terms of their usefulness in describing photovoltaic properties.

  16. DFT/B3LYP study of tocopherols and chromans antioxidant action energetics

    NASA Astrophysics Data System (ADS)

    Klein, Erik; Lukeš, Vladimír; Ilčin, Michal

    2007-07-01

    Gas-phase reaction enthalpies related to the individual steps of three phenolic antioxidants action mechanisms - hydrogen atom transfer (HAT), single-electron transfer-proton transfer (SET-PT) and sequential proton loss electron transfer (SPLET) for four tocopherols and seven chromans - were calculated using DFT/B3LYP method. For α-tocopherol, one of the chromans and phenol, reaction enthalpies in water were computed. In comparison to gas phase, water causes severe changes in the energetics of studied compounds antioxidant action. From the thermodynamic point of view, entering SPLET mechanism represents the most probable process in water.

  17. Spin state transition in the active center of the hemoglobin molecule: DFT + DMFT study

    NASA Astrophysics Data System (ADS)

    Novoselov, D.; Korotin, Dm. M.; Anisimov, V. I.

    2016-05-01

    An ab initio study of electronic and spin configurations of the iron ion in the active center of the human hemoglobin molecule is presented. With a combination of the Density Functional Theory (DFT) method and the Dynamical Mean Field Theory (DMFT) approach, the spin state transition description in the iron ion during the oxidation process is significantly improved in comparison with previous attempts. It was found that the origin of the iron ion local moment behavior both for the high-spin and for the low-spin states in the hemoglobin molecule is caused by the presence of a mixture of several atomic states with comparable statistical probability.

  18. TD-DFT study of the pKa∗ for coumarins

    NASA Astrophysics Data System (ADS)

    Houari, Ymène; Jacquemin, Denis; Laurent, Adèle D.

    2013-09-01

    The excited state acid dissociation constants (pKa∗) of a panel of five coumarins have been studied using several PCM-TD-DFT protocols including both vibrational and state-specific (SS) effects. The pKa∗ have been calculated using the excited state thermodynamical cycle and the Förster cycle. For this set of compounds the addition of explicit water molecules does not improve the computed acidity constants computed with the thermodynamical cycle. However, the addition of explicit water molecules to the PCM model apparently improves the quality of the optical spectra and hence the Förster estimates. State specific effects do not bring significant improvements in this case.

  19. Spectral investigations, DFT computations and molecular docking studies of the antimicrobial 5-nitroisatin dimer

    NASA Astrophysics Data System (ADS)

    Beaula, T. Joselin; Joe, I. Hubert; Rastogi, V. K.; Jothy, V. Bena

    2015-03-01

    5-Nitroisatin is used for the treatment of fungal and bacterial strains exploring antimicrobial activity. Structural and vibrational spectroscopic studies were carried out by using FT-IR, FT Raman, UV and NMR spectral analysis together with DFT method using GAUSSIAN'09 software. Assignments of vibrational spectra have been carried out with the aid of NCA. NBO analysis, Charge Analysis, HOMO LUMO, ESP, aromaticity and thermodynamic properties have been analyzed. Thermal stability has been analyzed by TG/DTA method. 5NI has been screened for its antimicrobial activity and found to exhibit antifungal and antibacterial effects. Docking simulation has been performed.

  20. Studies in theoretical particle physics

    SciTech Connect

    Kaplan, D.B.

    1991-07-01

    This proposal focuses on research on three distinct areas of particle physics: (1) Nonperturbative QCD. I tend to continue work on analytic modelling of nonperturbative effects in the strong interactions. I have been investigating the theoretical connection between the nonrelativistic quark model and QCD. The primary motivation has been to understand the experimental observation of nonzero matrix elements involving current strange quarks in ordinary matter -- which in the quark model has no strange quark component. This has led to my present work on understanding constituent (quark model) quarks as collective excitations of QCD degrees of freedom. (2) Weak Scale Baryogenesis. A continuation of work on baryogenesis in the early universe from weak interactions. In particular, an investigation of baryogenesis occurring during the weak phase transition through anomalous baryon violating processes in the standard model of weak interactions. (3) Flavor and Compositeness. Further investigation of a new mechanism that I recently discovered for dynamical mass generation for fermions, which naturally leads to a family hierarchy structure. A discussion of recent past work is found in the next section, followed by an outline of the proposed research. A recent publication from each of these three areas is attached to this proposal.

  1. Synthesis, spectroscopic characterizations, crystal structures and DFT studies of nalidixic acid carbonyl hydrazones derivatives

    NASA Astrophysics Data System (ADS)

    Bergamini, F. R. G.; Ribeiro, M. A.; Lancellotti, M.; Machado, D.; Miranda, P. C. M. L.; Cuin, A.; Formiga, A. L. B.; Corbi, P. P.

    2016-09-01

    This article describes the synthesis and characterization of the 1-ethyl-7-methyl-4-oxo-1,4-dihydro-1,8-naphthyridine-3-carbohydrazide (hzd) and six carbonyl hydrazones derivatives of the nalidixic with 1H-pyrrol-2-ylmethylidene (hpyrr), 1H-imidazol-2-ylmethylidene (h2imi), pyridin-2-ylmethylidene (h2py), pyridin-3-ylmethylidene (h3py), pyridin-4-ylmethylidene(h4py) and (2-hydroxyphenyl)methylidene (hsali). The carbonyl hydrazones were characterized by elemental and ESI-QTOF-MS analyses, IR and detailed NMR spectroscopic measurements. The 2D NMR experiments allowed the unambiguous assignment of the hydrogen, carbon and nitrogen atoms, which have not been reported for nalidixic acid carbonyl hydrazone derivatives so far. Crystal structures of hzd and the new carbonyl hydrazones h2imi, hpyrr and h3py were determined by X-ray diffraction studies. Although the synthesis of hzd was reported decades ago, the hzd crystal structure have not been reported yet. Geometric optimizations of all the characterized structures were performed with the aid of DFT studies. Despite the fact that the hydrazones with 2-pyridine carboxylic acid (h2py) and salicyl aldehyde (hsali) were already reported by literature, a detailed spectroscopic study followed by DFT studies are also reported for such compounds in this manuscript. Antimicrobial studies of the compounds are also presented.

  2. Interrogating the strength of the bond between salt and water: a combined DFT and MP2 study

    NASA Astrophysics Data System (ADS)

    Li, Bo; Michaelides, Angelos; Scheffler, Matthias

    2007-03-01

    The interaction of water with salt (NaCl) is of widespread importance and of considerable general interest. Although numerous theoretical studies have been reported [1], none has provided a convincingly reliable estimate of the strength of the bond between water and a flat NaCl surface, such as NaCl(001). Moreover, the computed adsorption energies predicted by DFT vary from 0.2-0.7 eV/H2O depending on the choice of exchange-correlation functional [2]. Here, we address this issue through an extensive series of periodic Hartree-Fock and post-Hartree Fock [Møller-Plesset perturbation (MP2) and coupled cluster (CCSD(T))] calculations. Periodic Hartree-Fock calculations have been performed for H2O molecules adsorbed on NaCl slabs, and by evaluating the local dependence of the correlation contribution to the adsorption energy with respect to cluster size, we obtain accurate MP2 and CCSD(T) estimates of the H2O adsorption energy on NaCl(001). Our computed adsorption energy, which is around 0.6 eV/H2O, comes close to the experimental value [3] and is at the upper end of the range predicted by DFT. [1] A. Verdaguer, G. M. Sacha, H. Bluhm, and M. Salmeron, Chem. Rev. 106, 1478 (2006). [2] B. Li, A. Michaelides, and M. Scheffler, in preparation. [3] L. W. Bruch, A. Glebov, J. P. Toennies, and H. Weiss, J. Chem. Phys. 103, 5109 (1995).

  3. DFT-D study of 14N nuclear quadrupolar interactions in tetra-n-alkyl ammonium halide crystals.

    PubMed

    Dib, Eddy; Alonso, Bruno; Mineva, Tzonka

    2014-05-15

    The density functional theory-based method with periodic boundary conditions and addition of a pair-wised empirical correction for the London dispersion energy (DFT-D) was used to study the NMR quadrupolar interaction (coupling constant CQ and asymmetry parameter ηQ) of (14)N nuclei in a homologous series of tetra-n-alkylammonium halides (C(x)H(2x+1))4N(+)X(-) (x = 1-4), (X = Br, I). These (14)N quadrupolar properties are particularly challenging for the DFT-D computations because of their very high sensitivity to tiny geometrical changes, being negligible for other spectral property calculations as, for example, NMR (14)N chemical shift. In addition, the polarization effect of the halide anions in the considered crystal mesophases combines with interactions of van der Waals type between cations and anions. Comparing experimental and theoretical results, the performance of PBE-D functional is preferred over that of B3LYP-D. The results demonstrated a good transferability of the empirical parameters in the London dispersion formula for crystals with two or more carbons per alkyl group in the cations, whereas the empirical corrections in the tetramethylammonium halides appeared to be inappropriate for the quadrupolar interaction calculation. This is attributed to the enhanced cation-anion attraction, which causes a strong polarization at the nitrogen site. Our results demonstrated that the (14)N CQ and ηQ are predominantly affected by the molecular structures of the cations, adapted to the symmetry of the anion arrangements. The long-range polarization effect of the surrounding anions at the target nitrogen site becomes more important for cells with lower spatial symmetry. PMID:24758512

  4. Inclusion complexes of cypermethrin and permethrin with monochlorotriazinyl-beta-cyclodextrin: A combined spectroscopy, TG/DSC and DFT study

    NASA Astrophysics Data System (ADS)

    Yao, Qi; You, Bin; Zhou, Shuli; Chen, Meng; Wang, Yujiao; Li, Wei

    2014-01-01

    The suitable size hydrophobic cavity and monochlorotriazinyl group as a reactive anchor make MCT-β-CD to be widely used in fabric finishing. In this paper, the inclusion complexes of monochlorotriazinyl-beta-cyclodextrin (MCT-β-CD) with cypermethrin (CYPERM) and permethrin (PERM) are synthesized and analyzed by TG/DSC, FT-IR and Raman spectroscopy. TG/DSC reveals that the decomposed temperatures of inclusion complexes are lower by 25-30 °C than that of physical mixtures. DFT calculations in conjunction with FT-IR and Raman spectral analyses are used to study the structures of MCT-β-CD and their inclusion complexes. Four isomers of trisubstituted MCT-β-CD are designed and DFT calculations reveal that 1,3,5-trisubstituted MCT-β-CD has the lowest energy and can be considered as main component of MCT-β-CD. The ground-state geometries, vibrational wavenumbers, IR and Raman intensities of MCT-β-CD and their inclusion complexes were calculated at B3LYP/6-31G (d) level of theory. Upon examining the optimized geometry of inclusion complex, we find that the CYPERM and PERM are inserted into the toroid of MCT-β-CD from the larger opening. The band at 1646 cm-1 in IR and at 1668 cm-1 in Raman spectrum reveals that monochloroazinyl group of MCT-β-CD exists in ketone form but not in anion form. The noticeable IR and Raman shift of phenyl reveals that these two benzene rings of CYPERM and PERM stays inside the cavity of MCT-β-CD and has weak interaction with MCT-β-CD. This spectroscopy conclusion is consistent with theoretical predicted structure.

  5. DFT-D study of 14N nuclear quadrupolar interactions in tetra-n-alkyl ammonium halide crystals.

    PubMed

    Dib, Eddy; Alonso, Bruno; Mineva, Tzonka

    2014-05-15

    The density functional theory-based method with periodic boundary conditions and addition of a pair-wised empirical correction for the London dispersion energy (DFT-D) was used to study the NMR quadrupolar interaction (coupling constant CQ and asymmetry parameter ηQ) of (14)N nuclei in a homologous series of tetra-n-alkylammonium halides (C(x)H(2x+1))4N(+)X(-) (x = 1-4), (X = Br, I). These (14)N quadrupolar properties are particularly challenging for the DFT-D computations because of their very high sensitivity to tiny geometrical changes, being negligible for other spectral property calculations as, for example, NMR (14)N chemical shift. In addition, the polarization effect of the halide anions in the considered crystal mesophases combines with interactions of van der Waals type between cations and anions. Comparing experimental and theoretical results, the performance of PBE-D functional is preferred over that of B3LYP-D. The results demonstrated a good transferability of the empirical parameters in the London dispersion formula for crystals with two or more carbons per alkyl group in the cations, whereas the empirical corrections in the tetramethylammonium halides appeared to be inappropriate for the quadrupolar interaction calculation. This is attributed to the enhanced cation-anion attraction, which causes a strong polarization at the nitrogen site. Our results demonstrated that the (14)N CQ and ηQ are predominantly affected by the molecular structures of the cations, adapted to the symmetry of the anion arrangements. The long-range polarization effect of the surrounding anions at the target nitrogen site becomes more important for cells with lower spatial symmetry.

  6. Inclusion complexes of cypermethrin and permethrin with monochlorotriazinyl-beta-cyclodextrin: a combined spectroscopy, TG/DSC and DFT study.

    PubMed

    Yao, Qi; You, Bin; Zhou, Shuli; Chen, Meng; Wang, Yujiao; Li, Wei

    2014-01-01

    The suitable size hydrophobic cavity and monochlorotriazinyl group as a reactive anchor make MCT-β-CD to be widely used in fabric finishing. In this paper, the inclusion complexes of monochlorotriazinyl-beta-cyclodextrin (MCT-β-CD) with cypermethrin (CYPERM) and permethrin (PERM) are synthesized and analyzed by TG/DSC, FT-IR and Raman spectroscopy. TG/DSC reveals that the decomposed temperatures of inclusion complexes are lower by 25-30 °C than that of physical mixtures. DFT calculations in conjunction with FT-IR and Raman spectral analyses are used to study the structures of MCT-β-CD and their inclusion complexes. Four isomers of trisubstituted MCT-β-CD are designed and DFT calculations reveal that 1,3,5-trisubstituted MCT-β-CD has the lowest energy and can be considered as main component of MCT-β-CD. The ground-state geometries, vibrational wavenumbers, IR and Raman intensities of MCT-β-CD and their inclusion complexes were calculated at B3LYP/6-31G (d) level of theory. Upon examining the optimized geometry of inclusion complex, we find that the CYPERM and PERM are inserted into the toroid of MCT-β-CD from the larger opening. The band at 1646 cm(-1) in IR and at 1668 cm(-1) in Raman spectrum reveals that monochloroazinyl group of MCT-β-CD exists in ketone form but not in anion form. The noticeable IR and Raman shift of phenyl reveals that these two benzene rings of CYPERM and PERM stays inside the cavity of MCT-β-CD and has weak interaction with MCT-β-CD. This spectroscopy conclusion is consistent with theoretical predicted structure.

  7. A combined experimental and DFT study of a novel unsymmetrical azine 2-(4-methoxybenzylidene)-1-(1-(4-isobutylphenyl) ethylidene) hydrazine

    NASA Astrophysics Data System (ADS)

    Vijaya, P.; Sankaran, K. R.

    2015-03-01

    A novel unsymmetrical azine 2-(4-methoxybenzylidene)-1-(1-(4-isobutylphenyl) ethylidene) hydrazine (UA) was prepared and characterized by IR, 1H and 13C NMR spectral studies. A 2D - potential energy scan (PES) of p-isobutylacetophenone (IBAP) was the portal to the conformational analysis of UA by density functional theory (DFT) methods using 6-31G(d,p) basis set by Gaussian 03 program. The theoretical IR frequencies were found to be in good agreement with the experimental values. The IR frequencies of UA were analyzed by means of Potential energy Distribution (PED %) calculation using Vibrational Energy Distribution Analysis (VEDA 4) program. The experimental NMR chemical shift values of UA were compared with the theoretical values obtained by DFT method. Nonlinear optical behavior of the unsymmetrical azine is also examined by the theoretically predicted values of dipole moment (μ), polarizability (α0) and first hyperpolarizability (βtot). Stability of the UA molecule has been analyzed using NBO analysis. The electrochemistry of UA studied experimentally by cyclic voltammetry is complemented by the computational analysis of the anionic form of the molecule UA. The determination of various global and local reactivity descriptors in the context of chemical reactivity is also performed and the electrophilicity at the vital atomic sites in UA is revealed. Bader's Atoms in molecules (AIM) theory of UA indicated the presence of intramolecular hydrogen bonding in the molecule. The molecular electrostatic potential (MEP) and HOMO-LUMO orbital analysis are also performed for the molecule UA.

  8. DFT study of the formate formation on Ni(111) surface doped by transition metals [Ni(111)-M; M=Cu, Pd, Pt, Rh

    NASA Astrophysics Data System (ADS)

    Nugraha; Saputro, A. G.; Agusta, M. K.; Rusydi, F.; Maezono, R.; Dipojono, H. K.

    2016-08-01

    We report on a theoretical study of the formation of formate (HCOO) from the reaction of CO2 gas and a pre- adsorbed H atom (CO2 (g) + *H → *HCOO) on Ni(111) surface doped by transition-metals [Ni(111)-M; M= Cu, Pd, Pt, Rh] by means of density functional theory (DFT) calculations. This *HCOO formation reaction is one of the most important rate- limiting steps in the methanol synthesis process. We find that the presence of transition metal doping on the first-layer of Ni(111) surface could reduce the activation barrier of this reaction [up to ~38.4%, compared to clean Ni(111) surface].

  9. Insight into Pd-catalyzed branching cyclizations of enediyne-imides towards furo[2,3-b]pyridines: a DFT study.

    PubMed

    Wu, Weirong; Bi, Siwei; Liu, Yuxia; Tang, Yanan; Li, Bingwen

    2015-12-21

    A new type of Pd-catalyzed branching cyclizations of enediyne-imides towards furo[2,3-b]pyridines has been investigated with the help of DFT calculations. The role of the solvent DMF was probed based on the theoretical reaction mechanistic study. The chemical selectivity was investigated and found to be determined by the C[double bond, length as m-dash]C rotation step versus the (Cl-H + Pd-C(sp(2))) σ-bond metathesis step. In addition, the solvent effects were also elucidated to clarify why different solvents lead to different products. PMID:26462603

  10. Study on the structure and vibrational spectra of efavirenz conformers using DFT: Comparison to experimental data

    NASA Astrophysics Data System (ADS)

    Mishra, Soni; Tandon, Poonam; Ayala, A. P.

    2012-03-01

    Efavirenz, (S)-6-chloro-4-(cyclopropylethynyl)-1,4-dihydro-4-(trifluoromethyl)-2H-3,1-benzoxazin-2-one, is an anti HIV agent belonging to the class of the non-nucleoside inhibitors of the HIV-1 virus reverse transcriptase. A systematic quantum chemical study of the possible conformations, their relative stabilities and vibrational spectra of efavirenz has been reported. Structural and spectral characteristics of efavirenz have been studied by vibrational spectroscopy and quantum chemical methods. Density functional theory (DFT) calculations for potential energy curve, optimized geometries and vibrational spectra have been carried out using 6-311++G(d,p) basis sets and B3LYP functionals. Based on these results, we have discussed the correlation between the vibrational modes and the crystalline structure of the most stable form of efavirenz. A complete analysis of the experimental infrared and Raman spectra has been reported on the basis of wavenumber of the vibrational bands and potential energy distribution. The infrared and the Raman spectra of the molecule based on DFT calculations show reasonable agreement with the experimental results. The calculated HOMO and LUMO energies shows that charge transfer occur within the molecule.

  11. DFT and MP2 study of the interaction between corannulene and alkali cations.

    PubMed

    Rellán-Piñeiro, Marcos; Rodríguez-Otero, Jesús; Cabaleiro-Lago, Enrique M; Josa, Daniela

    2013-05-01

    Corannulene is an unsaturated hydrocarbon composed of fused rings, with one central five-membered ring and five peripheral six-membered rings. Its structure can be considered as a portion of C60. Corannulene is a curved π surface, but unlike C60, it has two accessible different faces: one concave (inside) and one convex (outside). In this work, computational modeling of the binding between alkali metal cations (Li(+), Na(+), and K(+)) and corannulene has been performed at the DFT and MP2 levels. Different corannulene···M(+) complexes have been studied and the transition states interconnecting local minima were located. The alkali cations can be bound to a five or six membered ring in both faces. At the DFT level, binding to the convex face (outside) is favored relative to the concave face for the three alkali cations studied, as it was previously published. This out preference was found to decrease as cation size increases. At the MP2 level, although a similar trend is found, some different conclusions related to the in/out preference were obtained. According to our results, migration of cations can take place on the convex or on the concave face. Also, there are two ways to transform a concave complex in a convex complex: migration across the edge of corannulene and bowl-to-bowl inversion.

  12. (1) H NMR analysis of O-methyl-inositol isomers: a joint experimental and theoretical study.

    PubMed

    De Almeida, Mauro V; Couri, Mara Rubia C; De Assis, João Vitor; Anconi, Cleber P A; Dos Santos, Hélio F; De Almeida, Wagner B

    2012-09-01

    Density functional theory (DFT) calculations of (1) H NMR chemical shifts for l-quebrachitol isomers were performed using the B3LYP functional employing the 6-31G(d,p) and 6-311 + G(2d,p) basis sets. The effect of the solvent on the B3LYP-calculated NMR spectrum was accounted for using the polarizable continuum model. Comparison is made with experimental (1) H NMR spectroscopic data, which shed light on the average uncertainty present in DFT calculations of chemical shifts and showed that the best match between experimental and theoretical B3LYP (1) H NMR profiles is a good strategy to assign the molecular structure present in the sample handled in the experimental measurements. Among four plausible O-methyl-inositol isomers, the l-quebrachitol 2a structure was unambiguously assigned based only on the comparative analysis of experimental and theoretical (1) H NMR chemical shift data. The B3LYP infrared (IR) spectrum was also calculated for the four isomers and compared with the experimental data, with analysis of the theoretical IR profiles corroborating assignment of the 2a structure. Therefore, it is confirmed in this study that a combined experimental/DFT spectroscopic investigation is a powerful tool in structural/conformational analysis studies. PMID:22865668

  13. (1) H NMR analysis of O-methyl-inositol isomers: a joint experimental and theoretical study.

    PubMed

    De Almeida, Mauro V; Couri, Mara Rubia C; De Assis, João Vitor; Anconi, Cleber P A; Dos Santos, Hélio F; De Almeida, Wagner B

    2012-09-01

    Density functional theory (DFT) calculations of (1) H NMR chemical shifts for l-quebrachitol isomers were performed using the B3LYP functional employing the 6-31G(d,p) and 6-311 + G(2d,p) basis sets. The effect of the solvent on the B3LYP-calculated NMR spectrum was accounted for using the polarizable continuum model. Comparison is made with experimental (1) H NMR spectroscopic data, which shed light on the average uncertainty present in DFT calculations of chemical shifts and showed that the best match between experimental and theoretical B3LYP (1) H NMR profiles is a good strategy to assign the molecular structure present in the sample handled in the experimental measurements. Among four plausible O-methyl-inositol isomers, the l-quebrachitol 2a structure was unambiguously assigned based only on the comparative analysis of experimental and theoretical (1) H NMR chemical shift data. The B3LYP infrared (IR) spectrum was also calculated for the four isomers and compared with the experimental data, with analysis of the theoretical IR profiles corroborating assignment of the 2a structure. Therefore, it is confirmed in this study that a combined experimental/DFT spectroscopic investigation is a powerful tool in structural/conformational analysis studies.

  14. Ab-initio and DFT calculations on molecular structure, NBO, HOMO-LUMO study and a new vibrational analysis of 4-(Dimethylamino) Benzaldehyde.

    PubMed

    Rocha, Mariana; Di Santo, Alejandro; Arias, Juan Marcelo; Gil, Diego M; Ben Altabef, Aída

    2015-02-01

    The experimental and theoretical study on the molecular structure and a new vibrational analysis of 4-(Dimethylamino) Benzaldehyde (DMABA) is presented. The IR and Raman spectra were recorded in solid state. Optimized geometry, vibrational frequencies and various thermodynamic parameters of the title compound were calculated using DFT methods and are in agreement with the experimental values. A detailed interpretation of the IR and Raman spectra of the title compound were reported. The stability of the molecule arising from hyper-conjugative interactions and charge delocalization has been analyzed using NBO analysis and AIM approach. The HOMO and LUMO analysis were used to determine the charge transfer within the molecule and some molecular properties such as ionization potential, electron affinity, electronegativity, chemical potential, hardness, softness and global electrophilicity index. The TD-DFT approach was applied to assign the electronic transitions observed in the UV-visible spectrum measured experimentally. Molecular electrostatic potential map was performed by the DFT method. According to DSC measurements, the substance presents a melting point of 72.34°C and decomposes at temperatures higher than 193°C.

  15. Ab-initio and DFT calculations on molecular structure, NBO, HOMO-LUMO study and a new vibrational analysis of 4-(Dimethylamino) Benzaldehyde

    NASA Astrophysics Data System (ADS)

    Rocha, Mariana; Di Santo, Alejandro; Arias, Juan Marcelo; Gil, Diego M.; Altabef, Aída Ben

    2015-02-01

    The experimental and theoretical study on the molecular structure and a new vibrational analysis of 4-(Dimethylamino) Benzaldehyde (DMABA) is presented. The IR and Raman spectra were recorded in solid state. Optimized geometry, vibrational frequencies and various thermodynamic parameters of the title compound were calculated using DFT methods and are in agreement with the experimental values. A detailed interpretation of the IR and Raman spectra of the title compound were reported. The stability of the molecule arising from hyper-conjugative interactions and charge delocalization has been analyzed using NBO analysis and AIM approach. The HOMO and LUMO analysis were used to determine the charge transfer within the molecule and some molecular properties such as ionization potential, electron affinity, electronegativity, chemical potential, hardness, softness and global electrophilicity index. The TD-DFT approach was applied to assign the electronic transitions observed in the UV-visible spectrum measured experimentally. Molecular electrostatic potential map was performed by the DFT method. According to DSC measurements, the substance presents a melting point of 72.34 °C and decomposes at temperatures higher than 193 °C.

  16. Electronic Structure of Fullerene Acceptors in Organic Bulk-Heterojunctions: A Combined EPR and DFT Study.

    PubMed

    Mardis, Kristy L; Webb, Jeremy N; Holloway, Tarita; Niklas, Jens; Poluektov, Oleg G

    2015-12-01

    Organic photovoltaic (OPV) devices are a promising alternative energy source. Attempts to improve their performance have focused on the optimization of electron-donating polymers, while electron-accepting fullerenes have received less attention. Here, we report an electronic structure study of the widely used soluble fullerene derivatives PC61BM and PC71BM in their singly reduced state, that are generated in the polymer:fullerene blends upon light-induced charge separation. Density functional theory (DFT) calculations characterize the electronic structures of the fullerene radical anions through spin density distributions and magnetic resonance parameters. The good agreement of the calculated magnetic resonance parameters with those determined experimentally by advanced electron paramagnetic resonance (EPR) allows the validation of the DFT calculations. Thus, for the first time, the complete set of magnetic resonance parameters including directions of the principal g-tensor axes were determined. For both molecules, no spin density is present on the PCBM side chain, and the axis of the largest g-value lies along the PCBM molecular axis. While the spin density distribution is largely uniform for PC61BM, it is not evenly distributed for PC71BM.

  17. A DFT study of phenol adsorption on a low doping Mn-Ce composite oxide model

    NASA Astrophysics Data System (ADS)

    D´Alessandro, Oriana; Pintos, Delfina García; Juan, Alfredo; Irigoyen, Beatriz; Sambeth, Jorge

    2015-12-01

    Density functional theory calculations (DFT + U) were performed on a low doping Mn-Ce composite oxide prepared from experimental data, including X-ray diffraction (XRD) and temperature-programmed reduction (TPR). We considered a 12.5% Mn-doped CeO2 solid solution with fluorite-type structure, where Mn replaces Ce4+ leading to an oxygen-deficient bulk structure. Then, we modeled the adsorption of phenol on the bare Ce0.875Mn0.125O1.9375(1 1 1) surface. We also studied the effect of water adsorption and dissociation on phenol adsorption on this surface, and compared the predictions of DFT + U calculations with diffuse reflectance infrared Fourier transform spectroscopy (DRIFTS) measurements. The experimental results allowed us to both build a realistic model of the low doping Mn-Ce composite oxide and support the prediction that phenol is adsorbed as a phenoxy group with a tilt angle of about 70° with respect to the surface.

  18. A DFT study of a new class of gold nanocluster-photochrome multi-functional switches.

    PubMed

    Fihey, Arnaud; Maurel, François; Perrier, Aurélie

    2014-12-21

    With the help of a computational scheme combining molecular dynamics, DFT and TD-DFT methods, the conformational, electronic and optical properties of a new class of hybrid compounds where a photochromic molecule belonging to the dithienylethene family (DTE) is covalently linked to a Au25 nanocluster (gold nanocluster or GNC) are investigated. We compare two types of hybrid GNC-DTE systems where the aromatic linker between the metallic and the DTE moieties is either a phenyl or a thiophene ring. By examining the perturbation of the DTE electronic structure after grafting upon the GNC, we show that the hybrid system with a phenyl linker should preserve its photochromic activity. For the latter system, we have then studied the possible energy and electron transfer between the GNC and the DTE units. The energy transfer between the two moieties can be a priori discarded while a uni-directional electron transfer should take place from the GNC to the excited DTE. We show that this transfer can be controlled by switching the state of the molecule. PMID:25363237

  19. Electronic and mechanical properties of single-walled carbon nanotubes interacting with epoxy: A DFT study

    NASA Astrophysics Data System (ADS)

    Ghorbanzadeh Ahangari, M.; Fereidoon, A.; Jahanshahi, M.; Ganji, M. D.

    2013-02-01

    Carbon nanotubes exhibit extremely high stiffness and strength, and are regarded as perfect reinforcing fibers for developing a new class of nanocomposites. The use of quantum mechanical calculations is more accurate than other atomistic methods for studying the interface and mechanical properties on the nanoscale for such materials. Ab initio calculations based on density functional theory (DFT) are employed to investigate the interaction properties of epoxy on typical zigzag and armchair single-walled carbon nanotubes (SWCNTs). The interaction energies for epoxy monomers with different orientations on SWCNTs are investigated. The results indicate that epoxy is weakly bound to the outer surface of the considered nanotubes and that the obtained interaction energy values are typical for physisorption. In addition, the influence of different defects (Stone-Wale, one- and two-atom vacancies) and functional groups (-NH2 and -OH) on the interaction properties between the epoxy and the respective SWCNTs has been investigated. Our results indicate that the interaction energy between the SWCNT and the epoxy decreased as the number of defects increased. In addition, the strongest interaction was observed for the SWCNT functionalized with the -OH group. Therefore, DFT calculations were performed to investigate the effect of the -OH functional group on the mechanical properties of SWCNTs interacting with epoxy.

  20. Phenothiazine-anthraquinone donor-acceptor molecules: synthesis, electronic properties and DFT-TDDFT computational study.

    PubMed

    Zhang, Wen-Wei; Mao, Wei-Li; Hu, Yun-Xia; Tian, Zi-Qi; Wang, Zhi-Lin; Meng, Qing-Jin

    2009-09-17

    Two donor-acceptor molecules with different pi-electron conjugative units, 1-((10-methyl-10H-phenothiazin-3-yl)ethynyl)anthracene-9,10-dione (AqMp) and 1,1'-(10-methyl-10H-phenothiazine-3,7-diyl)bis(ethyne-2,1-diyl)dianthracene-9,10-dione (Aq2Mp), have been synthesized and investigated for their photochemical and electrochemical properties. Density functional theory (DFT) calculations provide insights into their molecular geometry, electronic structures, and properties. These studies satisfactorily explain the electrochemistry of the two compounds and indicate that larger conjugative effect leads to smaller HOMO-LUMO gap (Eg) in Aq2Mp. Both compounds show ICT and pi --> pi* transitions in the UV-visible range in solution, and Aq2Mp has a bathochromic shift and shows higher oscillator strength of the absorption, which has been verified by time-dependent DFT (TDDFT) calculations. The differences between AqMp and Aq2Mp indicate that the structural and conjugative effects have great influence on the electronic properties of the molecules. PMID:19705823

  1. Electronic Structure of Fullerene Acceptors in Organic Bulk-Heterojunctions. A Combined EPR and DFT Study

    SciTech Connect

    Mardis, Kristy L.; Webb, J.; Holloway, Tarita; Niklas, Jens; Poluektov, Oleg G.

    2015-11-16

    Organic photovoltaic (OPV) devices are a promising alternative energy source. Attempts to improve their performance have focused on the optimization of electron-donating polymers, while electron-accepting fullerenes have received less attention. Here, we report an electronic structure study of the widely used soluble fullerene derivatives PC61BM and PC71BM in their singly reduced state, that are generated in the polymer:fullerene blends upon light-induced charge separation. Density functional theory (DFT) calculations characterize the electronic structures of the fullerene radical anions through spin density distributions and magnetic resonance parameters. The good agreement of the calculated magnetic resonance parameters with those determined experimentally by advanced electron paramagnetic resonance (EPR) allows the validation of the DFT calculations. Thus, for the first time, the complete set of magnetic resonance parameters including directions of the principal g-tensor axes were determined. For both molecules, no spin density is present on the PCBM side chain, and the axis of the largest g-value lies along the PCBM molecular axis. While the spin density distribution is largely uniform for PC61BM, it is not evenly distributed for PC71BM.

  2. A DFT study of a new class of gold nanocluster-photochrome multi-functional switches.

    PubMed

    Fihey, Arnaud; Maurel, François; Perrier, Aurélie

    2014-12-21

    With the help of a computational scheme combining molecular dynamics, DFT and TD-DFT methods, the conformational, electronic and optical properties of a new class of hybrid compounds where a photochromic molecule belonging to the dithienylethene family (DTE) is covalently linked to a Au25 nanocluster (gold nanocluster or GNC) are investigated. We compare two types of hybrid GNC-DTE systems where the aromatic linker between the metallic and the DTE moieties is either a phenyl or a thiophene ring. By examining the perturbation of the DTE electronic structure after grafting upon the GNC, we show that the hybrid system with a phenyl linker should preserve its photochromic activity. For the latter system, we have then studied the possible energy and electron transfer between the GNC and the DTE units. The energy transfer between the two moieties can be a priori discarded while a uni-directional electron transfer should take place from the GNC to the excited DTE. We show that this transfer can be controlled by switching the state of the molecule.

  3. Theoretical study of inhomogenous fluids

    NASA Astrophysics Data System (ADS)

    Noworyta, Jerzy Piotr

    1998-07-01

    Binary, additive mixtures of hard spheres near the structureless 'hard' walls are studied with the grand canonical Monte Carlo (MC) simulation method. Binary mixtures of hard spheres and hard sphere systems in the neighborhood of hard walls had been studied separately before. This research for the first time incorporates both elements. A brief survey of the alternative methods that can be applied to study inhomogenous fluid systems is presented, with special attention paid to the integral equation theory. Well-known formulas utilizing the idea of a radial distribution function and a direct correlation function to describe the thermodynamics of the uniform hard sphere fluid through the solution of the Ornstein- Zernike (OZ) integral equation within the Percus-Yevick (PY) closure are given, as well as their generalization to the mixtures. Also presented are the empirical expressions (BMCSL), based on the PY and the scaled particle theory (SPT). The main features of the model assumed for the purpose of this study are hard spheres of two sizes, the conditions of the grand canonical ensemble and the existence of two parallel flat and structureless walls. In contrast to some recently published results, chemical potential is held constant for both species. Some details of the application of the classical Monte Carlo method to the investigated model are presented, including the procedure to ensure an unbiased Markov chain of states. The results of the simulation are analyzed with special attention to the choice of the equilibration point and the extrapolation of the density to the contact separation from the wall. The standard deviation is estimated through the block average method. Results are presented for the mixtures of hard spheres with a 3:5 and 1:3 diameter ratio. The applied range of chemical potentials allowed the simulation of moderately high densities, below the packing fraction of 0.4. Generally, the plots of the obtained reduced density profiles show good

  4. Theoretical study of the adsorption of histidine amino acid on graphene

    NASA Astrophysics Data System (ADS)

    Rodríguez, S. J.; Makinistian, L.; Albanesi, E.

    2016-04-01

    Previous studies have demonstrated how the interactions between biomolecules and graphene play a crucial role in the characterization and functionalization of biosensors. In this paper we present a theoretical study of the adsorption of histidine on graphene using density functional theory (DFT). In order to evaluate the relevance of including the carboxyl (-COOH) and amino (-NH2) groups in the calculations, we considered i) the histidine complete (i.e., with its carboxyl and its amino groups included), and ii) the histidine’s imidazole ring alone. We calculated the density of states for the two systems before and after adsorption. Furthermore, we compared the results of three approximations of the exchange and correlation interactions: local density (LDA), the generalized gradients by Perdew, Burke and Ernzerhof (GGA-PBE), and one including van der Waals forces (DFT-D2). We found that the adsorption energy calculated by DFT-D2 is higher than the other two: Eads-DFT-D2 >E ads-LDA >E ads-GGA . We report the existence of charge transfer from graphene to the molecule when the adsorption occurs; this charge transfer turns up to be greater for the complete histidine than for the imidazole ring alone. Our results revealed that including the carboxyl and amino groups generates a shift in the states of imidazole ring towards EF .

  5. Electronic properties of transition metal atoms on Cu2 N/Cu(100): a DFT comparative study

    NASA Astrophysics Data System (ADS)

    Ferron, Alejandro; Lado, José; Fernández-Rossier, Joaquín

    2015-03-01

    We study the electronic and magnetic properties of individual transition metal atoms (Ti, V, Cr, Mn, Fe, Co and Ni) deposited on a Cu2N /Cu(100) surface by means of spin-polarized density functional theory (DFT) calculations. We focus our work on a comparative study of the various quantities, such as magnetic moment, orbital occupation, structural properties, hybridization with the substrate and spin polarization of the substrate, paying attention to the trends as the transition metal is changed. In this work we try to go beyond existing theoretical works by providing a comprehensive and comparative study of the electronic, magnetic and structural properties of these seven atoms including also Ni, for which there are no published calculations to the best of our knowledge. In the case of Mn, Fe and Co, we connect our results with the existing scanning tunneling microscope experiments. A.F. acknowledges funding from the European Union's Seventh Framework Programme for research, technological development and demonstration, under the PEOPLE programme, Marie Curie COFUND Actions, grant agreement number 600375 and CONICET.

  6. Molecular structure, vibrational spectra and DFT computational studies of melaminium N-acetylglycinate dihydrate

    NASA Astrophysics Data System (ADS)

    Tanak, H.; Pawlus, K.; Marchewka, M. K.

    2016-10-01

    Melaminium N-acetylglycinate dihydrate, an organic material has been synthesized and characterized by X-ray diffraction, FT-IR, and FT-Raman spectroscopies for the protiated and deuteriated crystals. The title complex crystallizes in the triclinic system, and the space group is P-1 with a = 5.642(1) Å, b = 7.773(2) Å, c = 15.775(3) Å, α = 77.28(1)°, β = 84.00(1)°, γ = 73.43(1)° and Z = 2. The molecular geometry, vibrational frequencies and intensity of the vibrational bands have been interpreted with the aid of structure optimization based on density functional method (B3LYP) with the 6-311++G(d,p) basis set. The obtained vibrational wavenumbers and optimized geometric parameters were seen to be in good agreement with the experimental data. The intermolecular hydrogen bonding interactions of the title compound have been investigated using the natural bonding orbital analysis. It reveals that the O-H···O, N-H···N and N-H···O intermolecular interactions significantly influence crystal packing of this molecule. The non-linear optical properties are also addressed theoretically. The predicted NLO properties of the title compound are much greater than ones of urea. In addition, DFT calculations of the title compound, molecular electrostatic potential, thermodynamic properties, frontier orbitals and chemical reactivity descriptors were also performed at 6-311++G(d,p) level of theory.

  7. Crystal structure, vibrational studies, optical properties and DFT calculation of bis 2-aminobenzothiazolium tetrachloridocuprate.

    PubMed

    Kessentini, A; Belhouchet, M; Abid, Y; Minot, C; Mhiri, T

    2014-03-25

    The zero dimensional organic-inorganic hybrid compound (C7H7N2S)2CuCl4 was synthesized and characterized by X-ray diffraction, infrared absorption, Raman spectroscopy scattering and optical transmission measurements. The title compound crystallizes in the monoclinic system with P21/c space group. The unit cell parameters are a=7.060 (5) Å, b=9.748 (5) Å, c=14.037 (5) Å, β=98.520 (5)° and Z=2. The copper (II) ion has square planar coordination environment and the structure is built up from isolated [CuCl4](2)(-) anion surrounded by organic cations connected together via N-H⋯Cl hydrogen bonding. Room temperature IR and Raman spectra of the title compound were recorded and analyzed. The theoretical geometrical parameters in the ground state have been investigated by density functional theory (DFT) with the B3LYP/LanL2DZ level of theory. The organic-inorganic hybrid crystal thin film can be easily prepared by spin-coating method from the ethanol solution of the (C7H7N2S)2CuCl4 compound and it showed characteristic absorptions of Cu-Cl based layered perovskite centered at 288 and 400 nm. PMID:24326264

  8. Surface mediated chiral interactions between cyclodextrins and propranolol enantiomers: a SERS and DFT study.

    PubMed

    Stiufiuc, Rares; Iacovita, Cristian; Stiufiuc, Gabriela; Bodoki, Ede; Chis, Vasile; Lucaciu, Constantin M

    2015-01-14

    The nanoparticles mediated enantioselective recognition of propranolol enantiomers through native cyclodextrin complexation has been investigated by using surface-enhanced Raman spectroscopy (SERS). The highly efficient chiral recognition mechanism is based on a synergistic interaction between spherical noble metal nanoparticles, propranolol enantiomers and native cyclodextrins (CDs). Amongst the native cyclodextrins, β-CD has the highest chiral recognition ability for propranolol enantiomers, due to its specific shape and cavity size, thus producing the largest difference between the recorded SERS spectra of the two hosted enantiomers. The molecular interaction mechanism responsible for enantioselectivity was furthermore proven by quantum chemical calculations based on density functional theory (DFT). The theoretical calculations and experimental SER spectra allowed the assignment of functional moieties involved in the chiral recognition mechanism. The most important factors governing the highly efficient chiral probing by SERS are the fundamentally different mechanism of interaction between the R- and S-enantiomers and β-CD and the strength of interaction between the nanoparticle surface and the two propranolol-CD complexes. The role of metallic nanoparticles in the enantioselective recognition process has been experimentally evaluated by using silver and gold nanoparticles as SERS substrates, given their ability to interact differently with the complexes. The viability of this new method for chiral discrimination has been demonstrated for both substrates and could open new avenues for these kinds of applications.

  9. Analysis on linear and nonlinear optical properties of two Bisphenols with DFT approach: A comparative study

    NASA Astrophysics Data System (ADS)

    Vijayalakshmi, S.; Kalyanaraman, S.

    2015-04-01

    Density functional theory (DFT) method with B3LYP functional has been employed for the polarizability (α) and first order hyperpolarizability (β) calculations of two Bisphenols (4,4‧ thiodiphenol and 4,4‧ sulfonyldiphenol). Correlation between the dipole moment, polarizability and charge distribution is analyzed extensively. The calculated octupolar over dipolar contribution ratio parameter ρ from the hyperpolarizability components gives rise to macroscopic second harmonic generation (SHG) phenomenon identifying with the dipole nature of 4,4‧ thiodiphenol and the tendency towards the octupole nature of 4,4‧ sulfonyldiphenol molecule. Discussions on the geometrical structures of both Bisphenol molecules have been extended based on the comparison of optimized gas phase with solid state geometrical parameters to explain the high coplanarity in 4,4‧ sulfonyldiphenol molecule which leads to the extended π-conjugation. Theoretically predicted large value of SHG in 4,4‧ sulfonyldiphenol and zero value in case of 4,4‧ thiodiphenol are confirmed with Kurtz-Perry Powder technique.

  10. Combined spectroscopic and DFT studies on 6-bromo-4-chloro-3-formyl coumarin

    NASA Astrophysics Data System (ADS)

    Raj, R. K.; Gunasekaran, S.; Gnanasambandan, T.; Seshadri, S.

    2015-03-01

    The FTIR and FT-Raman spectra of 6-bromo-4-chloro-3-formyl coumarin (6B4C3FC) have been recorded in the region 4000-400 and 4000-100 cm-1, respectively. The optimized geometry, frequency and intensity of the vibrational bands were obtained by the density functional theory (DFT) using 6-31G(d,p) basis set. The harmonic vibrational frequencies were scaled and compared with experimental values. The observed and the calculated frequencies were found to be in good agreement. The UV-Visible spectrum was also recorded and compared with the theoretical values. The calculated HOMO and LUMO energies show that charge transfer occurs within molecule. The first order hyperpolarizability (β0) of 6B4C3FC is 21 times greater than that of urea. Stability of the molecule arising from hyperconjugative interactions, charge delocalization have been analyzed using natural bond orbital (NBO) analysis. Information about the charge density distribution of the molecule and its chemical reactivity has been obtained by mapping molecular electrostatic potential surface. In addition, the non-linear optical properties were discussed from the dipole moment values and the excitation wavelength in the UV-Visible region.

  11. Chalcogen analogues of nicotine lactam studied by NMR, FTIR, DFT and X-ray methods

    NASA Astrophysics Data System (ADS)

    Jasiewicz, Beata; Malczewska-Jaskóła, Karolina; Kowalczyk, Iwona; Warżajtis, Beata; Rychlewska, Urszula

    2014-07-01

    The selenoanalogue of nicotine has been synthesized and characterized by spectroscopic and X-ray diffraction methods. The crystals of selenonicotine are isomorphic with the thionicotine homologue and consist of molecules engaged in columnar π⋯π stacking interactions between antiparallely arranged pyridine moieties. These interactions, absent in other crystals containing nicotine fragments, seem to be induced by the presence of a lactam group. The molecular structures in the vacuum of the oxo-, thio- and selenonicotine homologues have been calculated by the DFT method and compared with the available X-ray data. The delocalized structure of thionicotine is stabilized by intramolecular Csbnd H⋯S hydrogen bond, which becomes weaker in the partial zwitterionic resonance structure of selenonicotine in favor of multiple Csbnd H⋯Se intermolecular hydrogen-bonds. The calculated data allow a complete assignment of vibration modes in the solid state FTIR spectra. The 1H and 13C NMR chemical shifts were calculated by the GIAO method with B3LYP/6-311G(3df) level. A comparison between experimental and calculated theoretical results indicates that the density functional B3LYP method provided satisfactory results for predicting FTIR, 1H, 13C NMR spectra properties.

  12. DFT study of the effect of substituents on the absorption and emission spectra of Indigo

    PubMed Central

    2012-01-01

    Background Theoretical analyses of the indigo dye molecule and its derivatives with Chlorine (Cl), Sulfur (S), Selenium (Se) and Bromine (Br) substituents, as well as an analysis of the Hemi-Indigo molecule, were performed using the Gaussian 03 software package. Results Calculations were performed based on the framework of density functional theory (DFT) with the Becke 3- parameter-Lee-Yang-Parr (B3LYP) functional, where the 6-31 G(d,p) basis set was employed. The configuration interaction singles (CIS) method with the same basis set was employed for the analysis of excited states and for the acquisition of the emission spectra. Conclusions The presented absorption and emission spectra were affected by the substitution position. When a hydrogen atom of the molecule was substituted by Cl or Br, practically no change in the absorbed and emitted energies relative to those of the indigo molecule were observed; however, when N was substituted by S or Se, the absorbed and emitted energies increased. PMID:22809100

  13. Vibrational spectroscopic study and NBO analysis on tranexamic acid using DFT method

    NASA Astrophysics Data System (ADS)

    Muthu, S.; Prabhakaran, A.

    2014-08-01

    In this work, we reported the vibrational spectra of tranexamic acid (TA) by experimental and quantum chemical calculation. The solid phase FT-Raman and FT-IR spectra of the title compound were recorded in the region 4000 cm-1 to 100 cm-1 and 4000 cm-1 to 400 cm-1 respectively. The molecular geometry, harmonic vibrational frequencies and bonding features of TA in the ground state have been calculated by using density functional theory (DFT) B3LYP method with standard 6-31G(d,p) basis set. The scaled theoretical wavenumber showed very good agreement with the experimental values. The vibrational assignments were performed on the basis of the potential energy distribution (PED) of the vibrational modes. Stability of the molecule, arising from hyperconjugative interactions and charge delocalization, has been analyzed using Natural Bond Orbital (NBO) analysis. The results show that ED in the σ* and π* antibonding orbitals and second order delocalization energies E(2) confirm the occurrence of intramolecular charge transfer (ICT) within the molecule. The electrostatic potential mapped onto an isodensity surface has been obtained. The calculated HOMO and LUMO energies show that charge transfer occurs within the molecule. The thermodynamic properties (heat capacity, entropy, and enthalpy) of the title compound at different temperatures were calculated in gas phase.

  14. Docking and DFT studies on ligand binding to Quercetin 2,3-dioxygenase.

    PubMed

    Malkhasian, Aramice Y S; Howlin, Brendan J

    2016-11-01

    Simple molecular docking calculations on quercetin, kojic acid and diethylcarbamatodithoic acid using the software package MOE are shown to be close to the geometries reported in the X-ray crystal structures of the protein co-crystallized with the respective ligands. Furthermore, DFT optimization of the docked conformations is shown to reproduce the essential features of previous studies on quercetin, showing that docking can be used to provide good starting structures for mechanistic study. The flavone ligand, lacking the hydroxyl group of the quercetin is shown by docking to be unable to approach closely the copper atom, indicating the necessity of the presence of the hydroxyl group and providing a prediction of the likely binding environment of this ligand.

  15. [Ca(BH4)2] n clusters as hydrogen storage material: A DFT study

    NASA Astrophysics Data System (ADS)

    Han, Cuiling; Dong, Yanyun; Wang, Bingqiang; Zhang, Caiyun

    2016-10-01

    Calcium borohydride is widely studied as a hydrogen storage material. However, investigations on calcium borohydride from a cluster perspective are seldom found. The geometric structures and binding energies of [Ca(BH4)2] n ( n = 1-4) clusters are determined using density function theory (DFT). For the most stable structures, vibration frequency, natural bond orbital (NBO) are calculated and discussed. The charge transfer from (BH4) to Ca was observed. Meanwhile, we also study the LUMO-HOMO gap ( E g) and the B-H bond dissociation energies (BDEs). [Ca(BH4)2]3 owns higher E g, revealing that trimer is more stable than the other forms. Structures don't change during optimization after hydrogen radical removal, showing that calcium borohydride could possibly be used as a reversible hydrogen storage material. [Ca(BH4)2]4 has the smallest dissociation energy suggesting it releases hydrogen more easily than others.

  16. 1,5-Diarylpyrazole and vanillin hybrids: Synthesis, biological activity and DFT studies.

    PubMed

    Hernández-Vázquez, Eduardo; Castañeda-Arriaga, Romina; Ramírez-Espinosa, Juan José; Medina-Campos, Omar Noel; Hernández-Luis, Francisco; Chaverri, José Pedraza; Estrada-Soto, Samuel

    2015-07-15

    Herein, we report the design and synthesis of 13 diarylpyrazole hybrids with vanillin constructed as dual compounds against oxidative stress and diabetes. Compounds were tested in two different antioxidant assays. It was found that all compounds showed an important antioxidant activity in both DPPH and ORAC models and the activity was even more remarkable than vanillin. In addition, the hypoglycemic effect of compounds 1, 2, 4 and 12 was evaluated. Interestingly, compound 1 had the most potent hypoglycemic effect with a glycemia reduction of 71%, which was higher than rimonabant. Finally, a DFT study to propose a reasonable antioxidant mechanism is detailed. Both thermodynamic and kinetic studies indicated that the most feasible mechanism consists in the HAT abstraction of the phenolic hydrogen due to the formation of an stable transition state through the most rapid and exergonic path, while the SPLET mechanism is the most significant at higher pH values.

  17. Exploring the interaction between lithium ion and defective graphene surface using dispersion corrected DFT studies

    SciTech Connect

    Vijayakumar, M.; Hu, Jian Z.

    2013-10-15

    To analyze the lithium ion interaction with realistic graphene surfaces, we carried out dispersion corrected DFT-D3 studies on graphene with common point defects and chemisorbed oxygen containing functional groups along with defect free graphene surface. Our study reveals that, the interaction between lithium ion (Li+) and graphene is mainly through the delocalized π electron of pure graphene layer. However, the oxygen containing functional groups pose high adsorption energy for lithium ion due to the Li-O ionic bond formation. Similarly, the point defect groups interact with lithium ion through possible carbon dangling bonds and/or cation-π type interactions. Overall these defect sites render a preferential site for lithium ions compared with pure graphene layer. Based on these findings, the role of graphene surface defects in lithium battery performance were discussed.

  18. Density functional theory (DFT) and natural bond orbital (NBO) study of vibrational spectra and intramolecular hydrogen bond interaction of L-ornithine-L-aspartate.

    PubMed

    Li, Linwei; Wu, Chengjun; Wang, Zhiqiang; Zhao, Lixia; Li, Zhen; Sun, Changshan; Sun, Tiemin

    2015-02-01

    In this study, exhaustive conformations of (S)-4-amino-4-carboxybutan-1-aminium (S)-3-amino-3-carboxypropanoate (LOLA) have been scanned. Experimental and theoretical studies on the structure and vibrations of the title compound are presented. The optimized molecular structure, vibrational wavenumbers, Mulliken atomic charges, natural bond orbital (NBO) and molecular electrostatic potential studies have been performed by density functional theory (DFT) using B3LYP method with the 6-311++G(d,p) basis set. Computed X-ray powder diffraction (XRPD) data has been carried out by DFT calculations and ab initio from measured XRPD finding. The LOLA molecular geometry has been determined which exists in the form of salt by intramolecular H-bonds and ionic bonding. Moreover, calculated vibrational frequencies were applied to simulate IR and Raman spectra of the title compound which showed excellent agreement with observed spectra. Reliable vibrational assignments have been made on the basis of potential energy distribution (PED) and 0.992 has been obtained by least squares method which is the uniform scaled factor for theoretical frequencies at 6-311++G(d,p) basis set. In addition, the hydrogen bonding in LOLA molecule has been explored by calculation of the hyperconjugative charge transfer interaction on [LP X-σ(*)(Y-H)], under NBO analysis, Mulliken atomic charge analysis, molecular electrostatic potential map (MEP) and vibrational spectra. Finally, HOMO-LUMO of the title compound has been plotted for predicting reactive sites.

  19. Ab initio and DFT studies of the structure and vibrational spectra of anhydrous caffeine

    NASA Astrophysics Data System (ADS)

    Srivastava, Santosh K.; Singh, Vipin B.

    2013-11-01

    Vibrational spectra and molecular structure of anhydrous caffeine have been systematically investigated by second order Moller-Plesset (MP2) perturbation theory and density functional theory (DFT) calculations. Vibrational assignments have been made and many previous ambiguous assignments in IR and Raman spectra are amended. The calculated DFT frequencies and intensities at B3LYP/6-311++G(2d,2p) level, were found to be in better agreement with the experimental values. It was found that DFT with B3LYP functional predicts harmonic vibrational wave numbers more close to experimentally observed value when it was performed on MP2 optimized geometry rather than DFT geometry. The calculated TD-DFT vertical excitation electronic energies of the valence excited states of anhydrous caffeine are found to be in consonance to the experimental absorption peaks.

  20. Synthesis, characterization and DFT studies of diethyl 4-hydroxy-6-nitro-4H-chromene-2,3-dicarboxylate

    NASA Astrophysics Data System (ADS)

    Dinparast, Leila; Valizadeh, Hassan; Vessally, Esmail; Bahadori, Mir Babak

    2016-02-01

    In the present study, diethyl 4-hydroxy-6-nitro-4H-chromene-2,3-dicarboxylate (DHNC) was synthesized and characterized using FT-IR, 1H and 13CNMR spectroscopy, mass spectrometry and UV-Vis (200-700 nm, in DMSO) spectrum. The structure of the title molecule was optimized at the B3LYP and PBE1PBE levels of theory using 6-311++G(d,p) basis set. The fundamental vibrational modes and chemical shifts of 1H and 13C of the present molecule were calculated using the B3LYP/6-311++G(d,p) and PBE1PBE/6-311++G(d,p) methods. UV-Vis spectrum of the title molecule was also calculated in DMSO and gas phase. The high stability and charge delocalization of DHNC arising from intramolecular hyperconjugative interaction confirmed with the NBO analysis at two DFT methods. Theoretical studies of the molecular orbitals such as HOMO-LUMO energy gap, mapped molecular electrostatic potential (MEP) surfaces and the Mulliken and NBO charges were also performed with the same levels of theory. In this work, the computed results and experimental observations support well each other.

  1. Vibrational spectroscopic, structural and nonlinear optical activity studies on 2-amino-3-chloro-5-trifluoromethyl pyridine: A DFT approach

    NASA Astrophysics Data System (ADS)

    Asath, R. Mohamed; Premkumar, S.; Rekha, T. N.; Jawahar, A.; Mathavan, T.; Benial, A. Milton Franklin

    2016-05-01

    The conformational analysis was carried out for 2-amino-3-chloro-5-trifluoromethylpyridine using potential energy surface (PES) scan and the most stable optimized conformer was predicted. The theoretical vibrational frequencies were calculated for the optimized geometry using DFT/B3LYP cc-pVQZ basis set by Gaussian 09 Program. The vibrational frequencies were assigned on the basis of potential energy distribution calculation using VEDA 4.0 program package. The Mulliken atomic charge values were calculated. In the Frontier molecular orbitals analysis, the molecular reactivity, kinetic stability, intermolecular charge transfer studies and the calculation of ionization energy, electron affinity, global hardness, chemical potential, electrophilicity index and softness of the molecule were carried out. The nonlinear optical (NLO) activity was studied and the first order hyperpolarizability value was computed, which was 3.48 times greater than the urea. The natural bond orbital analysis was also performed to confirm the NLO activity of the molecule. Hence, the ACTP molecule is a promising candidate for NLO materials.

  2. A combined EPR and DFT study of the overcrowded aromatic radical cations from Friedel-Crafts alkylation reactions

    NASA Astrophysics Data System (ADS)

    Wang, Tao; Tang, Fu Ming; Wu, Yi Fang

    2011-09-01

    Electron paramagnetic resonance and electron-nuclear double resonance methods were used to study the polycyclic aromatic radical cations produced in a Friedel-Crafts alkylating system, and the following radical cations were indentified: 3,6,11,14-tetramethyl dibenzo (a, c) triphylene and 2,6-dimethyl-9,10-di(p-methylbenzyl) anthracene radical cations. The results indicate that the observed electron paramagnetic resonance spectra are due to overcrowded polycyclic aromatic radical cations formed from the parent hydrocarbons. It is suggested that benzyl halides produced in the Friedel-Crafts alkylation reactions undergo Scholl condensation to give polycyclic aromatic hydrocarbons, which are converted into corresponding polycyclic aromatic radical cations in the presence of AlCl 3. We carried out the theoretical calculation of the isotropic 1H hyperfine coupling constants for studied both PAHs radical cations. The results indicate that the IEFPCM-DFT calculation at B3LYP level with 6-31++G(d,p), EPRII and EPRIII basis sets could well support the experimental hfcc assignment of the observed radicals. Optimized geometry indicates that the aromatic rings in both PAHs radical cations twisted significantly out of co-planarity.

  3. A DFT study of addition reaction between fragment ion (CH₂) units and fullerene (C₆₀) molecule.

    PubMed

    Zaragoza, Irineo Pedro; Vergara, Jaime; Pérez-Manríquez, Liliana; Salcedo, Roberto

    2011-05-01

    The theoretical study of the interaction between CH(2) and fullerene (C(60)) suggests the existence of an addition reaction mechanism; this feature is studied by applying an analysis of electronic properties. Several different effects are evident in this interaction as a consequence of the particular electronic transfer which occurs during the procedure. The addition or insertion of the methylene group results in a process, where the inclusion of CH(2) into a fullerene bond produces the formation of several geometric deformations. A simulation of these procedures was carried out, taking advantage of the dynamic semi-classical Born-Oppenheimer approximation. Dynamic aspects were analyzed at different speeds, for the interaction between the CH(2) group and the two bonds: CC (6, 6) and CC (6, 5) respectively on the fullerene (C(60)) rings. All calculations which involved electrons employed DFT as well as exchange and functional correlation. The results indicate a tendency for the CH(2) fragment to attack the CC (6, 5) bond. PMID:20658255

  4. Mechanistic and kinetic study on the reactions of coumaric acids with reactive oxygen species: a DFT approach.

    PubMed

    Garzón, Andrés; Bravo, Iván; Barbero, Antonio J; Albaladejo, José

    2014-10-01

    The mechanism and kinetics of reactions between coumaric acids and a series of reactive oxygen species ((•)OX) was studied through the density functional theory (DFT). H atom abstraction from -OH and -COOH groups and addition to the nonaromatic double bond were the most representative reaction pathways chosen for which free energy barriers and rate constants were calculated within the transition state theory (TST) framework. From these calculations, it was estimated that (•)OH > (•)OCH3 > (•)OOH > (•)OOCH3 is the order of reactivity of (•)OX with any coumaric acid. The highest rate constant was estimated for p-coumaric acid + (•)OH reaction, whereas the rest of the (•)OX species are more reactive with o-coumaric acid. On the basis of the calculated rate constants, H abstraction from a -OH group should be the main mechanism for the reactions involving (•)OCH3, (•)OOH, and (•)OOCH3 radicals. Nevertheless, the addition mechanism, which sometimes is not considered in theoretical studies on reactions of phenolic compounds with electrophilic species, could play a relevant role in the global mechanism of coumaric acid + (•)OH reactions.

  5. Interaction between fullerene-wheeled nanocar and gold substrate: A DFT study

    NASA Astrophysics Data System (ADS)

    Ahangari, M. Ghorbanzadeh; Ganji, M. Darvish; Jalali, A.

    2016-09-01

    Since the successful synthesis of nanocar and its surprising movement on the gold surface, several theoretical investigations have been devoted to explain the interaction properties as well as its movement mechanism on the substrate. All of them failed, however, to gain a clear theoretical insight into the respected challenges because of the weak computational methods implemented for this complex system including heavy metal atoms and giant size of the whole system. In this work, we have investigated the adsorption of fullerene-wheeled nanocar onto a Au (1 1 1) substrate using the comprehensive first-principles density functional theory (DFT) simulations. The binding energy between the nanocar and Au (1 1 1) surface was determined to be -9.43 eV (-217.45 kcal/mol). The net charge transfer from the nanocar to the gold substrate was calculated to be about 9.56 electrons. Furthermore, the equilibrium distances between the Au surface and the C60 molecule and nanocar chassis were estimated to be 2.20 Å and 2.30 Å, respectively. The BSSE correction was also considered in the binding energy estimation and the result show that the BSSE correction significantly affects the calculated binding energy for such systems. Finally, we have performed ab initio molecular dynamics simulation for a single C60 fullerene on the gold surface at room temperature. Our first-principles result shows that ambient condition affect remarkably on the adsorption property of fullerene on the gold surface. We also observed that the C60 fullerene wheel slips by approximately 3.90 Å within 5 ps of simulation time at 300 K.

  6. Relationship between electronic properties and drug activity of seven quinoxaline compounds: A DFT study

    NASA Astrophysics Data System (ADS)

    Behzadi, Hadi; Roonasi, Payman; Assle taghipour, Khatoon; van der Spoel, David; Manzetti, Sergio

    2015-07-01

    The quantum chemical calculations at the DFT/B3LYP level of theory were carried out on seven quinoxaline compounds, which have been synthesized as anti-Mycobacterium tuberculosis agents. Three conformers were optimized for each compound and the lowest energy structure was found and used in further calculations. The electronic properties including EHOMO, ELUMO and related parameters as well as electron density around oxygen and nitrogen atoms were calculated for each compound. The relationship between the calculated electronic parameters and biological activity of the studied compounds were investigated. Six similar quinoxaline derivatives with possible more drug activity were suggested based on the calculated electronic descriptors. A mechanism was proposed and discussed based on the calculated electronic parameters and bond dissociation energies.

  7. A DFT study on SO3 capture and activation over Si- or Al-doped graphene

    NASA Astrophysics Data System (ADS)

    Esrafili, Mehdi D.; Saeidi, Nasibeh; Nematollahi, Parisa

    2016-08-01

    This study reports the adsorption and favorable reaction mechanism of SO3 reduction by CO molecule over Si- or Al-doped graphene using DFT calculations. The adsorption energy of the most stable configuration of SO3 is calculated to be about -103 and -124 kcal/mol over the Si- and Al-doped graphene, respectively. The SO3 reduction over these surfaces proceeds through the following elementary steps (a) SO3 → SO2 + Oads and (b) Oads + CO → CO2. The estimated activation energy (Eact) for the dissociation of SO3 over the Si-doped graphene is about 9 kcal/mol smaller than that on the Al-doped graphene.

  8. Single-walled carbon nanotubes functionalized by a series of dichlorocarbenes: DFT study

    NASA Astrophysics Data System (ADS)

    Petrushenko, Igor K.; Petrushenko, Konstantin B.

    2016-02-01

    The structural and elastic properties of neutral and ionized dichlorocarbene (CCl2) functionalized single-walled carbon nanotubes (SWCNTs) were studied using density functional theory (DFT). The Young’s modulus of ionized pristine SWCNTs is found to decrease in comparison to that of neutral models. The interesting effect of increase in Young’s modulus values of ionized functionalized SWCNTs is observed. We ascribe this feature to the concurrent processes of the bond elongation on ionization and the local deformation on cycloaddition. The strong dependence of the elasticity modulus on the number of addends is also observed. However, the CCl2-attached SWCNTs in their neutral and ionized forms remain strong enough to be suitable for the reinforcement of composites. In contrast to the elastic properties, the binding energies do not change significantly, irrespective of CCl2 coverage.

  9. Encapsulation of fluoroethanols in pristine and Stone-Wales defect boron nitride nanotube - A DFT study

    NASA Astrophysics Data System (ADS)

    Umadevi, P.; Aiswarya, T.; Senthilkumar, L.

    2015-08-01

    The encapsulation of ethanol and fluoroethanols in pristine and Stone-Wales (SW) defect boron nitride nanotubes (BNNT) with and without hydrogen passivation has been investigated using density functional theory method (DFT). The fluoroethanols are physisorped with the charge transfer from alcohols to BNNTs. The adsorption of ethanol is weak in all forms of BNNTs. The hydrogen passivated SW defect BNNTs show strong fluoroethanols adsorption capacity. The deformation energy for SW defect tubes is reduced due to hydrogen passivation. The HOMO-LUMO gap and Fermi level of the BNNTs are altered due to fluoroethanols encapsulation, which subsequently has reduced the work function and improved the electron emission property. The study concludes that BNNTs are efficient materials for ethanol storage and fluoroethanol capture.

  10. The IINS, IR and DFT studies of hydrogen bonds in 6-Furfuryl and 6-Benzylaminopurines

    NASA Astrophysics Data System (ADS)

    Holderna-Natkaniec, Krystyna; Natkaniec, Ireneusz; Kasperkowiak, Weronika; Sciesinska, Elzbieta; Sciesinski, Jacek; Mikuli, Edward

    2006-06-01

    FTIR and IINS spectra of 6-Furfurylaminopurine (6-FAP) and 6-Benzylaminopurine (6-BAP) taken at different temperatures have been analysed and compared with the spectra calculated by the ab initio DFT/B3LYP method and the semiempirical PM3 method in the isolated molecule approximation, for the tautomers N3-H, N7-H and N9-H, and dimers with hydrogen bonds. For 6-FAP the best agreement between the calculated and experimental (at 20 K) spectra has been found for the N9-H tautomer, whose structure was established by X-ray diffraction. For 6-BAP the analogous agreement for the N9-H tautomer structure has been poor and much better for the N7-H tautomer. The vibrational spectra calculated for dimers of the molecules studied involved in hydrogen bonds, permitted also an interpretation of the bands whose positions and FWHM in the FTIR spectra changed with temperature.

  11. Cis-trans isomerisation of azobenzenes studied by laser-coupled NMR spectroscopy and DFT calculations.

    PubMed

    Wazzan, Nuha A; Richardson, Patricia R; Jones, Anita C

    2010-07-30

    In a combined experimental and computational study of a group of para-substituted azobenzenes, the effects of substituents and solvent on the kinetics of thermal cis-to-trans isomerisation have been examined and the success of DFT calculations in predicting kinetic parameters assessed. Mono-substituted species are predicted to isomerise by inversion in both non-polar and polar solvent, whereas for push-pull azobenzenes the mechanism is predicted to change from inversion to rotation on going from non-polar to polar solvent. Computed free energies of activation qualitatively reproduce experimental trends but do not quantitatively predict the kinetics of cis-trans isomerisation. The polarisable continuum model of solvation fails to predict the experimentally observed influence of solvent on the entropy of activation.

  12. Adsorption of molecular oxygen on VIIIB transition metal-doped graphene: A DFT study

    NASA Astrophysics Data System (ADS)

    Nasehnia, F.; Seifi, M.

    2014-12-01

    Adsorption of molecular oxygen with a triplet ground state on Fe-, Co-, Ni-, Ru-, Rh-, Pd-, OS-, Ir- and Pt-doped graphene is studied using density functional theory (DFT) calculations. The calculations show that O2 molecule is chemisorbed on the doped graphene sheets with large adsorption energies ranging from -0.653 eV to -1.851 eV and the adsorption process is irreversible. Mulliken atomic charge analysis of the structure shows that charge transfer from doped graphene sheets to O2 molecule. The amounts of transferred charge are between 0.375e- to 0.650e-, indicating a considerable change in the structures conductance. These results imply that the effect of O2 adsorption on transition metal-doped graphene structures can alter the possibility of using these materials as a toxic-gas (carbon monoxide, hydrogen fluoride, etc.) sensor.

  13. Study of cerium solubility in Gd2Zr2O7 by DFT + U calculations

    SciTech Connect

    Wang, X. J.; Xiao, H. Y.; Zu, X. T.; Weber, W. J.

    2011-01-01

    The pyrochlore Gd₂Zr₂O₇ has been proposed as a favorable structure for the immobilization of actinide nuclear waste, due to its high radiation resistance. Because CeO2 exhibits similar properties and radiation response to many actinide dioxides, it is often used as a surrogate for actinide dioxides in both experimental and computational studies. In the present work, we investigate the solubility of Ce in Gd₂Zr₂O₇, as well as the energetic and electronic properties of Gd2-yCeyZr₂O₇, based on density functional theory plus Hubbard U correction (DFT + U). Our calculations show that Gd₂Zr₂O₇and Ce₂Zr₂O₇ form a solid solution over the entire range of Ce content, in excellent agreement with experiments. The increased stability of the ordered pyrochlore structure with increasing Ce content may affect radiation resistance.

  14. Understanding the domino reaction between 3-chloroindoles and methyl coumalate yielding carbazoles. A DFT study.

    PubMed

    Domingo, Luis R; Sáez, José A; Emamian, Saeed R

    2015-02-21

    The molecular mechanism of the reaction between N-methyl-3-chloroindole and methyl coumalate yielding carbazole has been studied using DFT methods at the MPWB1K/6-311G(d,p) level in toluene. This reaction is a domino process that comprises three consecutive reactions: (i) a polar Diels-Alder (P-DA) reaction between indole and methyl coumalate yielding two stereoisomeric [2 + 4] cycloadducts (CAs); (ii) the elimination of HCl from these CAs affording two stereoisomeric intermediates; and (iii) the extrusion of CO2 in these intermediates, finally yielding the carbazole. This P-DA reaction proceeds in a completely regioselective and slightly exo selective fashion. In spite of the highly polar character of this P-DA reaction, it presents a high activation enthalpy of 21.8 kcal mol(-1) due to the loss of the aromatic character of the indole during the C-C bond formation. Thermodynamic calculations suggest that the P-DA reaction is the rate-determining step of this domino reaction; in addition, the initial HCl elimination in the formal [2 + 4] CAs is kinetically favoured over the extrusion of CO2. Although the P-DA reaction is kinetically and thermodynamically very unfavourable, the easier HCl and CO2 elimination from the [2 + 4] CAs together with the strong exergonic character of the CO2 extrusion makes the P-DA reaction irreversible. An ELF topological analysis of the bonding changes along the P-DA reaction supports a two-stage one-step mechanism. An analysis of the global DFT reactivity indices at the ground state of the reagents confirms the highly polar character of this P-DA reaction. Finally, the complete regioselectivity of the studied reactions can be explained using the Parr functions. PMID:25520216

  15. Understanding the domino reaction between 3-chloroindoles and methyl coumalate yielding carbazoles. A DFT study.

    PubMed

    Domingo, Luis R; Sáez, José A; Emamian, Saeed R

    2015-02-21

    The molecular mechanism of the reaction between N-methyl-3-chloroindole and methyl coumalate yielding carbazole has been studied using DFT methods at the MPWB1K/6-311G(d,p) level in toluene. This reaction is a domino process that comprises three consecutive reactions: (i) a polar Diels-Alder (P-DA) reaction between indole and methyl coumalate yielding two stereoisomeric [2 + 4] cycloadducts (CAs); (ii) the elimination of HCl from these CAs affording two stereoisomeric intermediates; and (iii) the extrusion of CO2 in these intermediates, finally yielding the carbazole. This P-DA reaction proceeds in a completely regioselective and slightly exo selective fashion. In spite of the highly polar character of this P-DA reaction, it presents a high activation enthalpy of 21.8 kcal mol(-1) due to the loss of the aromatic character of the indole during the C-C bond formation. Thermodynamic calculations suggest that the P-DA reaction is the rate-determining step of this domino reaction; in addition, the initial HCl elimination in the formal [2 + 4] CAs is kinetically favoured over the extrusion of CO2. Although the P-DA reaction is kinetically and thermodynamically very unfavourable, the easier HCl and CO2 elimination from the [2 + 4] CAs together with the strong exergonic character of the CO2 extrusion makes the P-DA reaction irreversible. An ELF topological analysis of the bonding changes along the P-DA reaction supports a two-stage one-step mechanism. An analysis of the global DFT reactivity indices at the ground state of the reagents confirms the highly polar character of this P-DA reaction. Finally, the complete regioselectivity of the studied reactions can be explained using the Parr functions.

  16. Complex of manganese (II) with curcumin: Spectroscopic characterization, DFT study, model-based analysis and antiradical activity

    NASA Astrophysics Data System (ADS)

    Gorgannezhad, Lena; Dehghan, Gholamreza; Ebrahimipour, S. Yousef; Naseri, Abdolhossein; Nazhad Dolatabadi, Jafar Ezzati

    2016-04-01

    The complex formation between curcumin (Cur) and Manganese (II) chloride tetrahydrate (MnCl2.4H2O) was studied by UV-Vis and IR spectroscopy. Spectroscopic data suggest that Cur can chelate Manganese cations. A simple multi-wavelength model-based method was used to define stability constant for complexation reaction regardless of the spectra overlapping of components. Also, pure spectra and concentration profiles of all components were extracted using this method. Density functional theory (DFT) was also used to view insight into complexation mechanism. Antioxidant activity of Cur and Cur-Mn(II) complex was evaluated using 1,1-diphenyl-2-picrylhydrazyl (DPPH) scavenging method. Bond dissociation energy (BDE), the highest occupied molecular orbital (HOMO), lowest unoccupied molecular orbital (LUMO) and Molecular electrostatic potential (MEP) of Cur and the complex also were calculated at PW91/TZ2P level of theory using ADF 2009.01 package. The experimental results show that Cur has a higher DPPH radical scavenging activity than Cur-Mn(II). This observation is theoretically justified by means of lower BDE and higher HOMO and LUMO energy values of Cur ligand as compared with those of Cur-Mn(II) complex.

  17. A periodic DFT study of adsorption of water on sodium-montmorillonite (001) basal and (010) edge surface

    NASA Astrophysics Data System (ADS)

    Peng, Chenliang; Min, Fanfei; Liu, Lingyun; Chen, Jun

    2016-11-01

    Water molecules can be easily adsorbed on the surface or in the interlayer space of clay minerals. This process is named hydration which plays an important role in various application fields. In order to find how water interacted with surface through minimizing the interaction among multiple waters, the adsorptions of single water molecule on external surfaces of sodium-montmorillonite (Na-MMT), including (001) basal and (010) edge surface, were theoretically investigated based on periodic density functional theory (DFT) method. The adsorption energies and geometries as well as electronic properties were studied in the work. It was found that water molecule was adsorbed on Na-MMT (001) basal surface mainly through electrostatic interaction between water molecule and Na+ cation, and was adsorbed on (010) edge surface through hydrogen bonding between water and surface sbnd OH or sbnd OH2 groups. The adsorption energy Eads value of water molecule on (010) edge surface was larger than that on (001) basal surface. After adsorption, a part of electron density was transferred from both Na-MMT (001) and (010) surfaces to water molecule. Based on the PDOS, there was the bonding between Na 3s and Ow 2p orbitals on (001) basal surface and between H 1s and O 2p orbitals for hydrogen bonds on (010) edge surface.

  18. On the viability of cyclometalated Ru(II) complexes as dyes in DSSC regulated by COOH group, a DFT study.

    PubMed

    Wang, Jian; Bai, Fu-Quan; Xia, Bao-Hui; Feng, Lu; Zhang, Hong-Xing; Pan, Qing-Jiang

    2011-02-14

    The Ru(II) complexes [Ru(bpp)(dcbpy)Cl](+) (1), [Ru(tcbpp)(bpy)Cl](+) (2), and [Ru(tc'bpp)(bpy)Cl](+) (3) (bpp = 2,6-bis(N-pyrazolyl)pyridine, dcbpy = 4,4'-dicarboxyl-bipyridine, bpy = bipyridine, tcbpp = 4-carboxyl-2,6-bis(2-carboxyl-N-pyrazolyl)pyridine, tc'bpp = 4-carboxyl-2,6-bis(4-carboxyl-N-pyrazolyl)pyridine) are studied theoretically using density functional theory (DFT) techniques to explore their properties as dye in a solar cell. The calculated geometry structure and absorption spectrum of 1 are consistent with its experimental results. The calculation results indicate which sites the COOH groups attach to can significantly influence the electronic structure of the complex. By migrating the COOH groups from the bpy ligand in 1 to bpp ligand in 2 and 3, the nature of LUMO changes from bpy-localized to bpp dominated. The calculated low-lying absorptions at λ > 370 nm of the three complexes are categorized as metal-to-ligand charge-transfer (MLCT) transitions and the transition terminates at the orbital populated by the COOH appended ligand. The atomic spin density analysis also indicates that the ligand which is modified by the COOH groups is the ideal spot for the captured electron to situate. It can be predicted that the performance of 2 and 3 in the dye-sensitized solar cell can be enhanced as compared with 1.

  19. C dbnd N sbnd N dbnd C conformational isomers of 2'-hydroxyacetophenone azine: FTIR matrix isolation and DFT study

    NASA Astrophysics Data System (ADS)

    Grzegorzek, Joanna; Mielke, Zofia; Filarowski, Aleksander

    2010-07-01

    2'-hydroxyacetophenone azine (APA) has been studied by matrix isolation infrared spectroscopy and quantum chemical calculations. The DFT/B3LYP/6-311++G(2d,2p) calculations demonstrated the existence of two conformers for the lowest energy E/ E configuration of APA, a s- trans and a gauche ones. The conformers are characterized by similar energies and differ in the value of a C dbnd N sbnd N dbnd C angle, that was calculated to be 180° for a planar s-trans conformer and 155° for a non-planar gauche one . The calculated barrier for conformational interconversion is also very low, ca. 1 kJ mol -1 for the conversion from a gauche conformer to a trans one. The FTIR spectra of an argon matrix doped with APA from a vapour above solid sample evidence the presence of both conformers that exhibit reversible interconversion at matrix temperatures. The comparison of the theoretical spectra with the experimental ones and reversible temperature dependence of the experimental spectra allowed for unambiguous spectroscopic characterization of the trans and gauche conformers. The experiment also demonstrated that a gauche conformer is more stable than a trans one. The spectra analysis indicates that transformation from a trans conformer to a gauche one weakens the intramolecular O sbnd H⋯N bonds in the molecule.

  20. Understanding the molecular mechanism and regioselectivity in the synthesis of celecoxib via a domino reaction: A DFT study.

    PubMed

    Emamian, Saeedreza

    2015-07-01

    The molecular mechanism and energetic of the domino reaction involved in the synthesis of celecoxib, a well-known anti-inflammatory drug, were theoretically studied at the DFT-B3LYP/6-31G(*) level. The first reaction in this domino process, which is also the rate-determining step, is a complete regioselective [3+2] cycloaddition (32CA) reaction associated with the nucleophilic attack of C5 carbon atom of enamine 7 on the C3 carbon atom of nitrile imine 6, leading to cycloadduct 8. The second reaction is a rapid acid/base catalysed stepwise elimination reaction of the morpholine 9 from cycloadduct 8 affording celecoxibe 3. The results also show that neither molecular mechanism of reaction nor activation barriers are considerably affected by the inclusion of solvent. The calculated relative Gibbs free energies as well as local reactivity indices obtained using the calculated Parr functions explain the complete regioselective fashion provided by the 32CA reaction under consideration in excellent agreement with the experimental findings.

  1. De(side chain) model of epothilone: bioconformer interconversions DFT study.

    PubMed

    Rusinska-Roszak, Danuta; Lozynski, Marek

    2009-07-01

    Using ab initio methods, we have studied conformations of the de(sidechain)de(dioxy)difluoroepothilone model to quantify the effect of stability change between the exo and endo conformers of the epoxy ring. The DFT minimization of the macrolactone ring reveals four low energy conformers, although MP2 predicted five stable structures. The model tested with DFT hybride functional (B3LYP/6-31+G(d,p)) exhibits the global minimum for one of the exo forms (C), experimentally observed in the solid state, but unexpectedly with the MP2 electron correlation method for the virtual endo form (W). Using the QST3 technique, several pathways were found for the conversion of the low energy conformers to the other low energy exo representatives, as well as within the endo analog subset. The potential energy relationships obtained for several exo forms suggest a high conformational mobility between three, experimentally observed, conformers. The high rotational barrier, however, excludes direct equilibrium with experimental EC-derived endo form S. The highest calculated transition state for the conversion of the most stable exo M interligand to the endo S form is approximately a 28 kcal/mol above the energy of the former. The two-step interconversion of the exo H conformer to the endo S requires at least 28 kcal/mol. Surprisingly, we found that the transition state energy of the H form to the virtual endo W has the acceptable value of about 9 kcal/mol and the next energy barrier for free interconversion of endo W to endo S is 13 kcal/mol. PMID:19153781

  2. Theoretical structural and vibrational study of 5-trifluoromethyluracil. A comparison with uracil

    SciTech Connect

    Rudyk, Roxana; Ramos, María E.; Checa, María A.; Brandán, Silvia A.; Chamorro, Eduardo E.

    2014-10-06

    In the present work, a comparative study on the structural and vibrational properties of the 5-trifluoromethyluracil (TFMU) derivative with those corresponding to uracil in gas and aqueous solution phases was performed combining the available H{sup 1}-NMR, C{sup 13}-NMR, F{sup 19}-NMR and FTIR spectra with Density Functional Theory (DFT) calculations. Three stable conformers were theoretically determined in both media by using the hybrid B3LYP/6-31G* method. The solvent effects were simulated by means of the self-consistent reaction field (SCRF) method employing the integral equation formalism variant (IEFPCM). Complete assignments of the vibrational spectra in both phases were performed combining the internal coordinates analysis and the DFT calculations with the Scaled Quantum Mechanics Force Field (SQMFF) methodology. The atomic charges, bond orders, solvation energies, dipole moments, molecular electrostatic potentials and force constants parameters were calculated for the three conformers of TFMU in gas phase and aqueous solution.

  3. Theoretical studies of chemical reaction dynamics

    SciTech Connect

    Schatz, G.C.

    1993-12-01

    This collaborative program with the Theoretical Chemistry Group at Argonne involves theoretical studies of gas phase chemical reactions and related energy transfer and photodissociation processes. Many of the reactions studied are of direct relevance to combustion; others are selected they provide important examples of special dynamical processes, or are of relevance to experimental measurements. Both classical trajectory and quantum reactive scattering methods are used for these studies, and the types of information determined range from thermal rate constants to state to state differential cross sections.

  4. DFT studies of the conformation and relative energies of alpha-maltotetraose (DP-4): An amylose fragment at atomic resolution

    Technology Transfer Automated Retrieval System (TEKTRAN)

    DFT optimization studies of more than one hundred conformations of a-maltotetraose have been carried out at the B3LYP/6-311++G** level of theory. The DP-4 fragments of predominately 4C1 chair residues include tightly bent forms, helix, band-flips, kinks, boat, and some 1C4 conformers. The three do...

  5. Physical characteristics and optical properties of PbS nanoclusters: DFT simulation and experimental study

    NASA Astrophysics Data System (ADS)

    Dong, Yanhua; Wen, Jianxiang; Sun, Xiaolan; Shang, Yana; Wang, Tingyun

    2015-08-01

    The physical characteristics and optical properties of PbS nanoclusters are investigated by using density functional theory (DFT) of first-principles. Microstructure models of (PbS)n (n=1-9) nanoclusters and bulk materials are built on Materials Studio platform, and its energy band structures, highest occupied molecular orbital-lowest unoccupied molecular orbital gap (HOMO-LUMO gap), density of state (DOS), and optical properties are calculated, respectively. Compared to PbS bulk materials, PbS nanoclusters show a discrete energy gap as well as the DOS, because of the quantum confinement effect. It is interesting that the HOMO-LUMO gap of (PbS)n (n=1-9) shows oscillates with the increasing of the n number. However, when its size is large enough, the HOMO-LUMO gap is gradually decrease with the increasing of size (>27 atoms). And, the HOMO-LUMO gap of PbS nanoclusters of different sizes is range from 2.575 to 0.58 eV, which covers the low loss communication band of optical communication. In addition, PbS nanomaterials (NMs) with small size are synthesized by using oleylamine as ligands. Sizes of PbS NMs can be accurately controlled through control of the reaction time as well as the growth temperature. The photoluminescence (PL) spectra show strong size dependence, which is large red shift with increasing size of the NMs. This trend is basically in agreement with the theoretical calculation above. Moreover, transmission electron microscopy (TEM) further reveals the morphology of PbS NMs. PbS NMs can be used in optical fiber amplifiers and fiber lasers because of its unique optical properties in optical communication bands.

  6. A theoretical study of fluorides scintillating crystals: Methodology and application

    NASA Astrophysics Data System (ADS)

    Jiang, Huitian

    Theoretical computation and simulation study has been performed on important scintillating fluorides crystal BaF2 and PbF2. The structural, electronic, transport and defects properties are investigated under different methodology schemes. The thesis provide accurate and detailed understandings of fundamental electronic structures of them in different phases for the very first time. A new expanded module for which provide the CRYSTAL program package with full capability in ECP (effective pseudo-potential) method calculation is developed and successfully applied into the this study. We present the results of an all-electron first principles study on BaF 2 in its stable (cubic) and high-pressure phases. A LCAO (linear combination of atomic orbitals) approach in the framework of DFT is employed for total energy calculations in cubic, orthorhombic and hexagonal phases of BaF 2. A fitting of the energy surface to the equation of state yields the lattice constant and the bulk modulus of these phases at zero pressure which are in good agreement with the corresponding experimental values. Analysis of band structure determines the high-pressure phases to be direct-gap materials and no metallization of BaF2 is predicted to occur for pressures up to 50 GPa. Furthermore, several peaks observed in the spectroscopic experiments have been identified with interband transitions in the cubic BaF2. We also performed the small-core ECP first principles calculation on Pb2 in its cubic, orthorhombic and hexagonal phases. For cubic phase, the accurate theoretical band data now are available with the structural properties were very well generated. It is predicted with direct band gap at X. The band structures of orthorhombic and hexagonal phases are first time calculated. We predict the orthorhombic and hexagonal phase PbF2 has indirect band gap. These results may help to clarify some doubts and controversies in the experiments and promote the application studies. At last, a discussion on

  7. Spectroscopic [FT-IR and FT-Raman] and theoretical [UV-Visible and NMR] analysis on α-Methylstyrene by DFT calculations

    NASA Astrophysics Data System (ADS)

    Karthikeyan, N.; Joseph Prince, J.; Ramalingam, S.; Periandy, S.

    2015-05-01

    In the present research work, the FT-IR, FT-Raman and 13C and 1H NMR spectra of the α-Methylstyrene were recorded. The observed fundamental frequencies in finger print as well as functional group regions were assigned according to their uniqueness region. The Gaussian computational calculations are carried out by HF and DFT (B3LYP and B3PW91) methods with 6-31++G(d,p) and 6-311++G(d,p) basis sets and the corresponding results were tabulated. The impact of the presence of vinyl group in phenyl structure of the compound is investigated. The modified vibrational pattern of the molecule associated vinyl group was analyzed. Moreover, 13C NMR and 1H NMR were calculated by using the gauge independent atomic orbital (GIAO) method with B3LYP methods and the 6-311++G(d,p) basis set and their spectra were simulated and the chemical shifts linked to TMS were compared. A study on the electronic and optical properties; absorption wavelengths, excitation energy, dipole moment and frontier molecular orbital energies were carried out. The kubo gap of the present compound was calculated related to HOMO and LUMO energies which confirm the occurring of charge transformation between the base and ligand. Besides frontier molecular orbitals (FMO), molecular electrostatic potential (MEP) was performed. The NLO properties related to Polarizability and hyperpolarizability based on the finite-field approach were also discussed.

  8. A theoretical study on ascorbic acid dissociation in water clusters.

    PubMed

    Demianenko, Eugeniy; Ilchenko, Mykola; Grebenyuk, Anatoliy; Lobanov, Victor; Tsendra, Oksana

    2014-03-01

    Dissociation of ascorbic acid in water has been studied by using a cluster model. It was examined by density functional theory (DFT) with the В3LYP, M06, and wB97XD functionals and a 6-311++G(d,p) basis set. The thermodynamic and kinetic characteristics of proton transfer from ascorbic acid molecule to water clusters were calculated as well as the equilibrium constants (pK a ) for the related processes. The used functionals in the DFT method together with continuum solvent models provided results close to the experimental data for the dissociation constant of ascorbic acid in aqueous solution.

  9. A systematic DFT study of substrate reconstruction effects due to thiolate and selenolate adsorption

    NASA Astrophysics Data System (ADS)

    Forster-Tonigold, Katrin; Groß, Axel

    2015-10-01

    Possible adsorbate induced reconstruction effects of methanethiolate (MeS) and methaneselenolate (MeSe) on Au(111) are studied employing density functional theory (DFT). For the purposes of this study these simple alkanechalcogenates prove to be representative models for chalcogenate molecules with larger rest groups. MeS and MeSe show very similar properties regarding the adsorption at the unreconstructed and reconstructed surfaces. The latter are constructed by systematically introducing defects at various adsorbate coverages. It turns out that only if the defect site is occupied by at least two molecules the costs of creating the defect can be counterbalanced by the energetic gain and thus adsorbate induced reconstruction gets energetically feasible. Furthermore, for various molecular coverages the adatom-dichalcogenate model, as found by Maksymovych et al. (Phys. Rev. Lett. 97 (2006) 146103), is indeed the most stable reconstruction motif among the simple models studied herein. In order to mimic the impact of the environment, e.g. solvent effects, temperature or electric potentials, the stability of the reconstruction motifs was studied as a function of both the chemical potential of the adsorbate and the energy needed to create the defect substrate structure following the ansatz of ab initio atomistic thermodynamics. This approach hints at the fact that different reconstruction motifs can be realized in different chemical environments.

  10. Experimental and Theoretical Studies on Biologically Active Lanthanide (III) Complexes

    NASA Astrophysics Data System (ADS)

    Kostova, I.; Trendafilova, N.; Georgieva, I.; Rastogi, V. K.; Kiefer, W.

    2008-11-01

    The complexation ability and the binding mode of the ligand coumarin-3-carboxylic acid (HCCA) to La(III), Ce(III), Nd(III), Sm(III), Gd(III) and Dy(III) lanthanide ions (Ln(III)) are elucidated at experimental and theoretical level. The complexes were characterized using elemental analysis, DTA and TGA data as well as 1H NMR and 13C NMR spectra. FTIR and Raman spectroscopic techniques as well as DFT quantum chemical calculations were used for characterization of the binding mode and the structures of lanthanide(III) complexes of HCCA. The metal—ligand binding mode is predicted through molecular modeling and energy estimation of different Ln—CCA structures using B3LYP/6-31G(d) method combined with a large quasi-relativistic effective core potential for lanthanide ion. The energies obtained predict bidentate coordination of CCA- to Ln(III) ions through the carbonylic oxygen and the carboxylic oxygen. Detailed vibrational analysis of HCCA, CCA- and Ln(III) complexes based on both calculated and experimental frequencies confirms the suggested metal—ligand binding mode. The natural bonding analysis predicts strongly ionic character of the Ln(III)-CCA bonding in the- complexes studied. With the relatively resistant tumor cell line K-562 we obtained very interesting in-vitro results which are in accordance with our previously published data concerning the activity of lanthanide(III) complexes with other coumarin derivatives.

  11. Comprehensive DFT and TD-DFT Studies on the Photophysical Properties of 5,6-Dichloro-1,3-Bis(2-Pyridylimino)-4,7-Dihydroxyisoindole: A New Class of ESIPT Fluorophore.

    PubMed

    Kataria, Santosh; Rhyman, Lydia; Ramasami, Ponnadurai; Sekar, Nagaiyan

    2016-09-01

    Hanson et al. [Org. Lett., 2011] reported the absorption and emission spectrum of 5,6-dichloro-1,3-bis(2-pyridylimino)-4,7-dihydroxyisoindole but the excited-state intramolecular proton transfer (ESIPT) process was not investigated. The photo-physical behaviour of 5,6-dichloro-1,3-bis(2-pyridylimino)-4,7-dihydroxyisoindole was studied using the density functional theory (DFT) and time-dependent density functional theory (TD-DFT). The functional used was B3LYP and 6-31G(d) was the basis set for all the atoms. All the ten tautomers were studied for the absorption and emission properties. It is found that the tautomer where hydroxyl groups are syn to nitrogen of isoindoline ring is most stable and thus, responsible for the ESIPT process. The computed absorption and emission values of tautomers using TD-DFT are in good agreement with those obtained experimentally.

  12. Electrochemical and DFT study of an anticancer and active anthelmintic drug at carbon nanostructured modified electrode.

    PubMed

    Ghalkhani, Masoumeh; Beheshtian, Javad; Salehi, Maryam

    2016-12-01

    The electrochemical response of mebendazole (Meb), an anticancer and effective anthelmintic drug, was investigated using two different carbon nanostructured modified glassy carbon electrodes (GCE). Although, compared to unmodified GCE, both prepared modified electrodes improved the voltammetric response of Meb, the carbon nanotubes (CNTs) modified GCE showed higher sensitivity and stability. Therefore, the CNTs-GCE was chosen as a promising candidate for the further studies. At first, the electrochemical behavior of Meb was studied by cyclic voltammetry and differential pulse and square wave voltammetry. A one step reversible, pH-dependent and adsorption-controlled process was revealed for electro-oxidation of Meb. A possible mechanism for the electrochemical oxidation of Meb was proposed. In addition, electronic structure, adsorption energy, band gap, type of interaction and stable configuration of Meb on the surface of functionalized carbon nanotubes were studied by using density functional theory (DFT). Obtained results revealed that Meb is weakly physisorbed on the CNTs and that the electronic properties of the CNTs are not significantly changed. Notably, CNTs could be considered as a suitable modifier for preparation of the modified electrode for Meb analysis. Then, the experimental parameters affecting the electrochemical response of Meb were optimized. Under optimal conditions, high sensitivity (b(Meb)=dIp,a(Meb)/d[Meb]=19.65μAμM(-1)), a low detection limit (LOD (Meb)=19nM) and a wide linear dynamic range (0.06-3μM) was resulted for the voltammetric quantification of Meb. PMID:27612835

  13. A combined experimental and DFT study of a novel unsymmetrical azine 2-(4-methoxybenzylidene)-1-(1-(4-isobutylphenyl) ethylidene) hydrazine.

    PubMed

    Vijaya, P; Sankaran, K R

    2015-03-01

    A novel unsymmetrical azine 2-(4-methoxybenzylidene)-1-(1-(4-isobutylphenyl) ethylidene) hydrazine (UA) was prepared and characterized by IR, (1)H and (13)C NMR spectral studies. A 2D - potential energy scan (PES) of p-isobutylacetophenone (IBAP) was the portal to the conformational analysis of UA by density functional theory (DFT) methods using 6-31G(d,p) basis set by Gaussian 03 program. The theoretical IR frequencies were found to be in good agreement with the experimental values. The IR frequencies of UA were analyzed by means of Potential energy Distribution (PED %) calculation using Vibrational Energy Distribution Analysis (VEDA 4) program. The experimental NMR chemical shift values of UA were compared with the theoretical values obtained by DFT method. Nonlinear optical behavior of the unsymmetrical azine is also examined by the theoretically predicted values of dipole moment (μ), polarizability (α0) and first hyperpolarizability (βtot). Stability of the UA molecule has been analyzed using NBO analysis. The electrochemistry of UA studied experimentally by cyclic voltammetry is complemented by the computational analysis of the anionic form of the molecule UA. The determination of various global and local reactivity descriptors in the context of chemical reactivity is also performed and the electrophilicity at the vital atomic sites in UA is revealed. Bader's Atoms in molecules (AIM) theory of UA indicated the presence of intramolecular hydrogen bonding in the molecule. The molecular electrostatic potential (MEP) and HOMO-LUMO orbital analysis are also performed for the molecule UA. PMID:25528505

  14. Modelling Catalyst Surfaces Using DFT Cluster Calculations

    PubMed Central

    Czekaj, Izabela; Wambach, Jörg; Kröcher, Oliver

    2009-01-01

    We review our recent theoretical DFT cluster studies of a variety of industrially relevant catalysts such as TiO2, γ-Al2O3, V2O5-WO3-TiO2 and Ni/Al2O3. Aspects of the metal oxide surface structure and the stability and structure of metal clusters on the support are discussed as well as the reactivity of surfaces, including their behaviour upon poisoning. It is exemplarily demonstrated how such theoretical considerations can be combined with DRIFT and XPS results from experimental studies. PMID:20057947

  15. Modelling catalyst surfaces using DFT cluster calculations.

    PubMed

    Czekaj, Izabela; Wambach, Jörg; Kröcher, Oliver

    2009-11-20

    We review our recent theoretical DFT cluster studies of a variety of industrially relevant catalysts such as TiO(2), gamma-Al(2)O(3), V(2)O(5)-WO(3)-TiO(2) and Ni/Al(2)O(3). Aspects of the metal oxide surface structure and the stability and structure of metal clusters on the support are discussed as well as the reactivity of surfaces, including their behaviour upon poisoning. It is exemplarily demonstrated how such theoretical considerations can be combined with DRIFT and XPS results from experimental studies.

  16. DFT study of geometries and stability of Bn clusters (n=2-8)

    NASA Astrophysics Data System (ADS)

    Li, Dong-Mei; Xiong, Zhi-Hua; Wan, Qi-Xin; Liu, Guo-Dong; Zhang, Wen-Rui; Ren, Zhong

    2008-12-01

    With density functional theory (DFT), the structures and stability of Bn clusters with n=2-8 have been studied. By using the all electron basis, all the geometries have been globally optimized without any symmetry constraint. It is found that all the small Bn (n=2-8) clusters prefer to form planar structures with sp2 bonds, which are in good agreement with others' related studies. Bn and Bn- are also compared. In contrast with the neutral Bn clusters, although B-B distances in Bn - have slight differences, but addition of one electron does not change their structures significantly. As for energies, all the anions are lying lower than their corresponding neutral clusters. In addition, calculations of energetic and electronic properties for all the neutral clusters have been presented. Both of these two properties show that in Bn (n=2-8), B3 and B5 are more stable than others. Vibrational spectra of Bn (n=3-8) clusters have also been discussed. In each spectrum, intensity peaks which are associated with the vibration of boron clusters related to B-B bond stretching can be observed and they are highest. However, among all the Bn clusters, such peaks of B3 and B5 show lower intensity than others. This results suggest that B3 and B5 are relatively more stable, which further demonstrates the conclusion above.

  17. Mechanical Properties of Metal Nitrides for Radiation Resistant Coating Applications: A DFT Study

    NASA Astrophysics Data System (ADS)

    Mota, Oscar U. Ojeda; Araujo, Roy A.; Wang, Haiyan; Çağın, Tahir

    Metal nitrides compounds like aluminum nitride (AlN), titanium nitride (TiN), tantalum nitride (TaN), hafnium nitride (HfN) and zirconium nitride (ZrN) are of great interesting because of their chemical and physical properties such as: high melting point, resistivity, thermal conductivity and extremely high hardness. They are the materials of choice for various applications like protective coating for tools, diffusion barriers or metal gate contact in microelectronics, and lately their potential applications as radiation-resistive shields. In order to assess their use for radiation tolerance we have studied the structural, mechanical and electronic properties. We have evaluated the anisotropic elastic constants and their pressure dependence for three different crystalline phases: B1-NaCl, B2-CsCl, and B3-ZnS crystal structures. In addition to these cubic polymorphs, we also have studied potential hexagonal structures of some of the same metal nitrides. All computations are carried out using first principles Density Functional Theory (DFT) approach.

  18. Adsorption of oxazole and isoxazole on BNNT surface: A DFT study

    NASA Astrophysics Data System (ADS)

    Kaur, Jasleen; Singla, Preeti; Goel, Neetu

    2015-02-01

    The adsorption behavior of oxazole and isoxazole heterocycles over the (6,0) zigzag and (5,5) armchair boron nitride nanotube (BNNT) has been studied within the formalism of density functional theory (DFT). The adsorption energies, the frontier molecular orbital (FMO) analysis and the structural changes at the adsorption site are indicative of covalent adsorption on the zigzag BNNT surface, while the adsorption is physical in nature on the armchair BNNT surface. The role of solvent in improving the adsorption properties over the BNNT surface is elucidated by reoptimizing the structures in aqueous phase. The solvation energy is indicative of remarkable increase in the solubility of BNNTs after adsorption of heterocyclic rings. The Density of states (DOS) Plots, natural bond orbital (NBO) analysis and the quantum molecular descriptors (QMD) are witness to the substantial changes in the electronic properties of the BNNT systems following the attachment of these heterocycles with the tube surface. The study envisages the functionalization of the BNNT as well as its applicability as carrier of the drugs containing heterocyclic rings oxazole and isoxazole with marked sensitivity to the type of adsorbate and the adsorbent.

  19. Bis(terpyridine)-based surface template structures on graphite: a force field and DFT study.

    PubMed

    Künzel, Daniela; Markert, Thomas; Gross, Axel; Benoit, David M

    2009-10-21

    Host-guest networks formed by ordered organic layers are promising candidates for applications in molecular storage and quantum computing. We have studied 2-dimensionally ordered surface template structures of bis(terpyridine)-derived molecules (BTPs) on graphite using force field and DFT methods and compared the results to recent experimental observations. In order to determine the force field best suited for surface calculations, bond lengths and angles, torsional potentials, adsorption and stacking energies of smaller aromatic molecules were calculated with different force fields (Compass, UFF, Dreiding and CVFF). Density functional perturbation theory calculations were used to study the intermolecular interactions between 3,3'-BTP molecules. Structural properties, adsorption energies and rotational barriers of the 3,3'-BTP surface structure and its host-guest systems with phthalocyanine (PcH(2)) or excess 3,3'-BTP as guest molecules have been addressed. In addition, STM images of oligopyridine and phthalocyanine molecules were simulated based on periodic and local density functional theory calculations.

  20. Electronic Properties of Zigzag Graphene Nanoribbons Studied by TAO-DFT.

    PubMed

    Wu, Chun-Shian; Chai, Jeng-Da

    2015-05-12

    Accurate prediction of the electronic properties of zigzag graphene nanoribbons (ZGNRs) has been very challenging for conventional electronic structure methods due to the presence of strong static correlation effects. To meet the challenge, we study the singlet-triplet energy gaps, vertical ionization potentials, vertical electron affinities, fundamental gaps, and symmetrized von Neumann entropy (i.e., a measure of polyradical character) of hydrogen-terminated ZGNRs with different widths and lengths using our recently developed thermally-assistedoccupation density functional theory (TAO-DFT) [Chai, J.-D. J. Chem. Phys. 2012, 136, 154104], a very efficient method for the study of large strongly correlated systems. Our results are in good agreement with the available experimental and high-accuracy ab initio data. The ground states of ZGNRs are shown to be singlets for all the widths and lengths investigated. With the increase of ribbon length, the singlet-triplet energy gaps, vertical ionization potentials, and fundamental gaps decrease monotonically, while the vertical electron affinities and symmetrized von Neumann entropy increase monotonically. On the basis of the calculated orbitals and their occupation numbers, the longer ZGNRs are shown to possess increasing polyradical character in their ground states, where the active orbitals are mainly localized at the zigzag edges. PMID:26894252

  1. A DFT study on the mechanisms for the cycloaddition reactions between 1-aza-2-azoniaallene cations and acetylenes.

    PubMed

    Wang, Jing-mei; Li, Zhi-ming; Wang, Quan-rui; Tao, Feng-gang

    2013-01-01

    The mechanisms of cycloaddition reactions between 1-aza-2-azoniaallene cations 1 and acetylenes 2 have been investigated using the global electrophilicity and nucleophilicity of the corresponding reactants as global reactivity indexes defined within the conceptual density functional theory. The reactivity and regioselectivity of these reactions were predicted by analysis of the energies, geometries, and electronic nature of the transition state structures. The theoretical results revealed that the reaction features a tandem process: an ionic 1,3-dipolar cycloaddition to produce the cycloadducts 3 H-pyrazolium salts 3 followed by a [1,2]-shift affording the thermodynamically more stable adducts 4 or 5. The mechanism of the cycloaddition reactions can be described as an asynchronous concerted pathway with reverse electron demand. The model reaction has also been investigated at the QCISD/6-31++G(d,p) and CCSD(T)/6-31++G(d,p)//B3LYP/6-31++G(d,p) levels as well as by the DFT. The polarizable continuum model, at the B3LYP/6-31++G(d,p) level of theory, was used to study solvent effects on all the studied reactions. In solvent dichloromethane, all the initial cycloadducts 3 were obtained via direct ionic process as the result of the solvent effect. The consecutive [1,2]-shift reaction, in which intermediates 3 are rearranged to the five-membered heterocycles 4/5, is proved to be a kinetically controlled reaction, and the regioselectivity can be modulated by varying the migrant. The LOL function and RDG function based on localized electron analysis were used to analysis the covalent bond and noncovalent interactions in order to unravel the mechanism of the title reactions. PMID:22810049

  2. Comparative vibrational spectroscopic studies, HOMO-LUMO, NBO analyses and thermodynamic functions of p-cresol and 2-methyl-p-cresol based on DFT calculations.

    PubMed

    Balachandran, V; Murugan, M; Nataraj, A; Karnan, M; Ilango, G

    2014-11-11

    In the present study structural properties of p-cresol, and 2-methoxy-p-cresol have been studied by using B3LYP/cc-pvdz and B3PW91/cc-pvdz of Density Functional Theory (DFT) utilizing Becke three exchange functional and Lee Yang Paar correlation functional. The Fourier transform infrared and Fourier transform Raman spectra of title molecules were recorded (solid phase). Optimized geometry, harmonic vibrational frequencies and various thermodynamic parameters of the title compounds were calculated with B3LYP/cc-pvdz, and B3PW91/cc-pvdz basis sets. Non-linear optical (NLO) behavior of the p-cresol and 2-methoxy-p-cresol were investigated by determining of electric dipole moment, polarizability α, and hyperpolarizability β using the above mentioned basis sets. The molecular properties such as ionization potential, electronegativity, chemical potential, electrophilicity have been deduced from HOMO-LUMO analysis employing the same basis sets. A detailed interpretation of the infrared and Raman spectra of title molecules were reported. UV spectrum was measured in different solvent. The energy and oscillator strength are calculated by Time Dependant Density Functional Theory (TD-DFT) results. The calculated HOMO and LUMO energies also confirm that charge transfer occurs within the molecule. The complete assignments were performed on the basis of the potential energy distribution (PED) of vibrational modes, calculated with scaled quantum mechanics (SQM) method. Finally the theoretical FT-IR, FT-Raman, and UV spectra of the title molecules have also been constructed.

  3. Comparative vibrational spectroscopic studies, HOMO-LUMO, NBO analyses and thermodynamic functions of p-cresol and 2-methyl-p-cresol based on DFT calculations

    NASA Astrophysics Data System (ADS)

    Balachandran, V.; Murugan, M.; Nataraj, A.; Karnan, M.; Ilango, G.

    2014-11-01

    In the present study structural properties of p-cresol, and 2-methoxy-p-cresol have been studied by using B3LYP/cc-pvdz and B3PW91/cc-pvdz of Density Functional Theory (DFT) utilizing Becke three exchange functional and Lee Yang Paar correlation functional. The Fourier transform infrared and Fourier transform Raman spectra of title molecules were recorded (solid phase). Optimized geometry, harmonic vibrational frequencies and various thermodynamic parameters of the title compounds were calculated with B3LYP/cc-pvdz, and B3PW91/cc-pvdz basis sets. Non-linear optical (NLO) behavior of the p-cresol and 2-methoxy-p-cresol were investigated by determining of electric dipole moment, polarizability α, and hyperpolarizability β using the above mentioned basis sets. The molecular properties such as ionization potential, electronegativity, chemical potential, electrophilicity have been deduced from HOMO-LUMO analysis employing the same basis sets. A detailed interpretation of the infrared and Raman spectra of title molecules were reported. UV spectrum was measured in different solvent. The energy and oscillator strength are calculated by Time Dependant Density Functional Theory (TD-DFT) results. The calculated HOMO and LUMO energies also confirm that charge transfer occurs within the molecule. The complete assignments were performed on the basis of the potential energy distribution (PED) of vibrational modes, calculated with scaled quantum mechanics (SQM) method. Finally the theoretical FT-IR, FT-Raman, and UV spectra of the title molecules have also been constructed.

  4. Unravelling Protein-DNA Interactions at Molecular Level: A DFT and NCI Study.

    PubMed

    González, J; Baños, I; León, I; Contreras-García, J; Cocinero, E J; Lesarri, A; Fernández, J A; Millán, J

    2016-02-01

    Histone-DNA interactions were probed computationally at a molecular level, by characterizing the bimolecular clusters constituted by selected amino acid derivatives with polar (asparagine and glutamine), nonpolar (alanine, valine, and isoleucine), and charged (arginine) side chains and methylated pyrimidinic (1-methylcytosine and 1-methylthymine) and puric (9-methyladenine and 9-methylguanine) DNA bases. The computational approach combined different methodologies: a molecular mechanics (MMFFs forced field) conformational search and structural and vibrational density-functional calculations (M06-2X with double and triple-ζ Pople's basis sets). To dissect the interactions, intermolecular forces were analyzed with the Non-Covalent Interactions (NCI) analysis. The results for the 24 different clusters studied show a noticeable correlation between the calculated binding energies and the propensities for protein-DNA base interactions found in the literature. Such correlation holded even for the interaction of the selected amino acid derivatives with Watson and Crick pairs. Therefore, the balance between hydrogen bonds and van der Waals interactions (specially stacking) in the control of the final shape of the investigated amino acid-DNA base pairs seems to be well reproduced in dispersion-corrected DFT molecular models, reinforcing the idea that the specificity between the amino acids and the DNA bases play an important role in the regulation of DNA. PMID:26765058

  5. DFT study of interactions between calcium hydroxyl ions and pyrite, marcasite, pyrrhotite surfaces

    NASA Astrophysics Data System (ADS)

    Zhao, Cuihua; Chen, Jianhua; Li, Yuqiong; Huang, De wei; Li, Weizhou

    2015-11-01

    The interaction between CaOH+ ions and pyrite, marcasite and pyrrhotite surfaces was studied using density functional theory (DFT) calculations. The calculated results show that the adsorption energy of CaOH+ on the marcasite surface is the largest, -384.65 kJ/mol; then pyrrhotite, -346.61 kJ/mol; pyrite, -276.62 kJ/mol. After CaOH+ adsorption, oxygen atom is bonded to one iron atom, calcium atom is bonded to two sulfur atoms of pyrite surface. And there exists a Casbnd Fe2 anti-bonding on the pyrite surface. For marcasite, oxygen atom is bonded to one iron atom, calcium atom is bonded to two sulfur atoms of marcasite surface. As for pyrrhotite, calcium atom is only attached to three sulfur atoms of pyrrhotite surface. The charge transfers occur from CaOH+ to sulfides surfaces. The value of charge transfer from CaOH+ to marcasite surface is the largest, then pyrite, pyrrhotite in order. However, formation of Casbnd Fe2 anti-bonding on the pyrite surface weakens the reaction of CaOH+ with pyrite.

  6. A DFT study on the adsorption of benzodiazepines to vermiculite surfaces.

    PubMed

    Carvalho, A J Palace; Dordio, A V; Ramalho, J P Prates

    2014-07-01

    Widespread use of pharmaceuticals such as benzodiazepines has been resulting over the last decades in the dissemination of residues of these compounds in the environment, and such fact has been raising increasing concern. The generally low efficiencies of conventional wastewater treatment processes for the removal of this type of pollutants demands for the development of alternative or complementary water and wastewater treatment technologies, among which adsorption processes have been gaining popularity, provided that cheap efficient adsorbents are found. Clay materials have been one of the popular choices in this regard. In the present study, quantum chemical calculations have been performed by periodic DFT using the projector augmented-wave (PAW) method to characterize the interactions of two benzodiazepine molecules, alprazolam and diazepam, with a surface of clay mineral, vermiculite. It was observed that both molecules interact strongly with the vermiculite surface, both through a water-bridge binding and by cation-bridge provided by the exchangeable Mg(2+) cations of the vermiculite surface. The results point to an interesting potential of vermiculite to be used efficiently as filter medium to remove these pollutants from water and wastewater.

  7. Effects of ionization on stability of 1-methylcytosine - DFT and PCM studies.

    PubMed

    Raczyńska, Ewa D; Michalec, Piotr; Zalewski, Marcin; Sapuła, Mariusz

    2016-07-01

    Consequences of ionization were studied by quantum-chemical methods (DFT and PCM) for 1-methylcytosine (MC)-a model of the nucleobase cytosine (C) connected with sugar in DNA. For calculations, three prototropic tautomers (one amino and two imino forms) and two imino zwitterions were considered, including conformational or configurational isomerism of exo heterogroups. Ionization and interactions between neighboring groups affect intramolecular proton-transfers, geometric and thermodynamic parameters, and electron delocalization for individual isomers. We discovered that an imino isomer is present in the isomeric mixture in the highest amount for positively ionized MC. Its contribution in neutral and negatively ionized MC is considerably smaller. Acid-base parameters for selected radical ions were estimated in the gas phase and compared to those of neutral MC. Gas-phase acidity of radical cations is close to that of the conjugate acid of MC, and gas-phase basicity of radical anions is close to that of the conjugate base of MC. Various routes of amino-imino conversion between neutral and ionized isomers were considered. Energetic-barrier for intramolecular proton-transfer in MC is close to that in the parent system-formamidine. PMID:27259531

  8. A vibrational spectroscopy study on 3-aminophenylacetic acid by DFT calculations.

    PubMed

    Akkaya, Yasemin; Balci, Kubilay; Goren, Yeliz; Akyuz, Sevim

    2015-08-01

    In this study, in which the group vibrations of 3-aminophenylacetic acid were investigated by electronic structure calculations based on Density Functional Theory (DFT), the possible stable conformers of the molecule were searched through a relaxed "potential energy surface scan" carried out at B3LYP/6-31G(d) level of theory. The corresponding equilibrium geometrical and vibrational spectral data for each of the determined stable conformers and for their possible dimer structures were obtained through "geometry optimisation" and "frequency" calculations carried out at B3LYP/6-31G(d) and B3LYP/6-311G++(d,p) levels of theory. The obtained results confirmed that anharmonic wavenumbers calculated at B3LYP/6-311G++(d,p) level generally quite well agree with the experimental wavenumbers, however, harmonic wavenumbers calculated at both levels of theory need an efficient refinement for a satisfactory agreement with experiment. In particular, the harmonic wavenumbers, IR and Raman intensities refined within Scaled Quantum Mechanical Force Field (SQM FF) methodology constituted the primary data set in the interpretation of the experimental FT-IR, FT-Raman and dispersive Raman spectra of 3-aminophenylacetic acid. By the help of these refined spectral data, the effects of conformation and intermolecular hydrogen bonding on the fundamental bands observed in the experimental spectra could be correctly predicted. PMID:25854610

  9. A vibrational spectroscopy study on 3-aminophenylacetic acid by DFT calculations

    NASA Astrophysics Data System (ADS)

    Akkaya, Yasemin; Balci, Kubilay; Goren, Yeliz; Akyuz, Sevim

    2015-08-01

    In this study, in which the group vibrations of 3-aminophenylacetic acid were investigated by electronic structure calculations based on Density Functional Theory (DFT), the possible stable conformers of the molecule were searched through a relaxed "potential energy surface scan" carried out at B3LYP/6-31G(d) level of theory. The corresponding equilibrium geometrical and vibrational spectral data for each of the determined stable conformers and for their possible dimer structures were obtained through "geometry optimisation" and "frequency" calculations carried out at B3LYP/6-31G(d) and B3LYP/6-311G++(d,p) levels of theory. The obtained results confirmed that anharmonic wavenumbers calculated at B3LYP/6-311G++(d,p) level generally quite well agree with the experimental wavenumbers, however, harmonic wavenumbers calculated at both levels of theory need an efficient refinement for a satisfactory agreement with experiment. In particular, the harmonic wavenumbers, IR and Raman intensities refined within Scaled Quantum Mechanical Force Field (SQM FF) methodology constituted the primary data set in the interpretation of the experimental FT-IR, FT-Raman and dispersive Raman spectra of 3-aminophenylacetic acid. By the help of these refined spectral data, the effects of conformation and intermolecular hydrogen bonding on the fundamental bands observed in the experimental spectra could be correctly predicted.

  10. Molecular functionalization of silicene/Ag(111) by covalent bonds: a DFT study.

    PubMed

    Stephan, Régis; Hanf, Marie-Christine; Sonnet, Philippe

    2015-06-14

    Among the 2D crystals, silicene, which forms sp(2)-sp(3) bonds, is expected to present a higher reactivity than graphene, characterized by sp(2) bonds only. However, silicene functionalization, in particular with organic molecules, remains an open question. By means of density functional theory, we study the adsorption of benzene, a model organic molecule, on (3 × 3) silicene on the (4 × 4) Ag(111) surface. Our calculations show that the dispersion interactions must be taken into account in order to describe this system properly. The adsorption energy is calculated by means of the semi-empirical dispersion-corrected density functional theory (DFT-D2) and the optB86b-vdW density functional. The charge density and electron localization function maps indicate that the molecule is chemisorbed on the silicene surface by means of two Si-C covalent bonds. In agreement with charge density difference calculations, two C-C double bonds are formed in the benzene molecule, which adopts a butterfly configuration. The silicene lattice is slightly deformed upon benzene adsorption, but the Si-Si distance remains the same as in bare silicene/Ag(111). Bader analysis shows a charge transfer from top Si atoms to both molecules and Ag substrates. Finally, we show that the covalent functionalization of silicene is possible.

  11. CC/DFT Route toward Accurate Structures and Spectroscopic Features for Observed and Elusive Conformers of Flexible Molecules: Pyruvic Acid as a Case Study.

    PubMed

    Barone, Vincenzo; Biczysko, Malgorzata; Bloino, Julien; Cimino, Paola; Penocchio, Emanuele; Puzzarini, Cristina

    2015-09-01

    The structures and relative stabilities as well as the rotational and vibrational spectra of the three low-energy conformers of pyruvic acid (PA) have been characterized using a state-of-the-art quantum-mechanical approach designed for flexible molecules. By making use of the available experimental rotational constants for several isotopologues of the most stable PA conformer, Tc-PA, the semiexperimental equilibrium structure has been derived. The latter provides a reference for the pure theoretical determination of the equilibrium geometries for all conformers, thus confirming for these structures an accuracy of 0.001 Å and 0.1 deg for bond lengths and angles, respectively. Highly accurate relative energies of all conformers (Tc-, Tt-, and Ct-PA) and of the transition states connecting them are provided along with the thermodynamic properties at low and high temperatures, thus leading to conformational enthalpies accurate to 1 kJ mol(-1). Concerning microwave spectroscopy, rotational constants accurate to about 20 MHz are provided for the Tt- and Ct-PA conformers, together with the computed centrifugal-distortion constants and dipole moments required to simulate their rotational spectra. For Ct-PA, vibrational frequencies in the mid-infrared region accurate to 10 cm(-1) are reported along with theoretical estimates for the transitions in the near-infrared range, and the corresponding infrared spectrum including fundamental transitions, overtones, and combination bands has been simulated. In addition to the new data described above, theoretical results for the Tc- and Tt-PA conformers are compared with all available experimental data to further confirm the accuracy of the hybrid coupled-cluster/density functional theory (CC/DFT) protocol applied in the present study. Finally, we discuss in detail the accuracy of computational models fully based on double-hybrid DFT functionals (mainly at the B2PLYP/aug-cc-pVTZ level) that avoid the use of very expensive CC

  12. CC/DFT Route toward Accurate Structures and Spectroscopic Features for Observed and Elusive Conformers of Flexible Molecules: Pyruvic Acid as a Case Study.

    PubMed

    Barone, Vincenzo; Biczysko, Malgorzata; Bloino, Julien; Cimino, Paola; Penocchio, Emanuele; Puzzarini, Cristina

    2015-09-01

    The structures and relative stabilities as well as the rotational and vibrational spectra of the three low-energy conformers of pyruvic acid (PA) have been characterized using a state-of-the-art quantum-mechanical approach designed for flexible molecules. By making use of the available experimental rotational constants for several isotopologues of the most stable PA conformer, Tc-PA, the semiexperimental equilibrium structure has been derived. The latter provides a reference for the pure theoretical determination of the equilibrium geometries for all conformers, thus confirming for these structures an accuracy of 0.001 Å and 0.1 deg for bond lengths and angles, respectively. Highly accurate relative energies of all conformers (Tc-, Tt-, and Ct-PA) and of the transition states connecting them are provided along with the thermodynamic properties at low and high temperatures, thus leading to conformational enthalpies accurate to 1 kJ mol(-1). Concerning microwave spectroscopy, rotational constants accurate to about 20 MHz are provided for the Tt- and Ct-PA conformers, together with the computed centrifugal-distortion constants and dipole moments required to simulate their rotational spectra. For Ct-PA, vibrational frequencies in the mid-infrared region accurate to 10 cm(-1) are reported along with theoretical estimates for the transitions in the near-infrared range, and the corresponding infrared spectrum including fundamental transitions, overtones, and combination bands has been simulated. In addition to the new data described above, theoretical results for the Tc- and Tt-PA conformers are compared with all available experimental data to further confirm the accuracy of the hybrid coupled-cluster/density functional theory (CC/DFT) protocol applied in the present study. Finally, we discuss in detail the accuracy of computational models fully based on double-hybrid DFT functionals (mainly at the B2PLYP/aug-cc-pVTZ level) that avoid the use of very expensive CC

  13. DFT model cluster studies of O₂ adsorption on hydrogenated titania sub-nanoparticles.

    PubMed

    Andreev, Alexey S; Kuznetsov, Vyacheslav N; Chizhov, Yuri V

    2013-11-01

    In the present paper, we examine the general applicability of different TiO2 model clusters to study of local chemical events on TiO2 sub-nanoparticles. Our previous DFT study of TiO2 activation through H adsorption and following deactivation by O2 adsorption using small amorphous Ti8O16 cluster were complemented by examination of rutile-type and spherical Ti15O30 nanoclusters. The obtained results were thoroughly compared with experimental data and results of related computational studies using other TiO2 models including periodic structures. It turned out that all considered model TiO2 model systems provide qualitatively similar results. It was shown that atomic hydrogen is adsorbed with negligible activation energy on surface O atoms, which is accompanied by the appearance of reduced Ti(3+) species and corresponding localized band gap 3d-Ti states. Oxygen molecule is adsorbed on Ti(3+) sites spontaneously forming molecular O2 (-) species by capturing an extra electron of Ti(3+) ion, which results in disappearance of Ti(3+) species and corresponding band gap states. Calculated g-tensor values of Ti(3+) and O2 (-) species agree well with the results of EPR studies and do not depend on the used TiO2 model cluster. Additionally, it was shown that the various cluster calculations provide results comparable with the calculations of periodic structures with respect to the modeling of chemical processes under study. As a whole, the present study approves the validity of molecular cluster approach to study of local chemical events on TiO2 sub-nanoparticles. PMID:24085538

  14. Synthesis, crystal structure, DFT studies and evaluation of the antioxidant activity of 3,4-dimethoxybenzenamine schiff bases.

    PubMed

    Aziz, Ahmad Nazif; Taha, Muhammad; Ismail, Nor Hadiani; Anouar, El Hassane; Yousuf, Sammer; Jamil, Waqas; Awang, Khalijah; Ahmat, Norizan; Khan, Khalid M; Kashif, Syed Muhammad

    2014-01-01

    Schiff bases of 3,4-dimethoxybenzenamine 1-25 were synthesized and evaluated for their antioxidant activity. All the synthesized compounds were characterized by various spectroscopic techniques. In addition, the characterizations of compounds 13, 15 and 16 were supported by crystal X-ray determinations and their geometrical parameters were compared with theoretical DFT calculations at the B3LYP level of theory. Furthermore, the X-ray crystal data of two non-crystalline compounds 8 and 18 were theoretically calculated and compared with the practical values of compounds 13, 15, 16 and found a good agreement. The compounds showed good DPPH scavenging activity ranging from 10.12 to 84.34 μM where compounds 1-4 and 6 showed stronger activity than the standard n-propyl gallate. For the superoxide anion radical assay, compounds 1-3 showed better activity than the standard.

  15. DFT and ab initio study of structure of dyes derived from 2-hydroxy and 2,4-dihydroxy benzoic acids

    NASA Astrophysics Data System (ADS)

    Dabbagh, Hossein A.; Teimouri, Abbas; Najafi Chermahini, Alireza; Shahraki, Maryam

    2008-02-01

    We present a detailed analysis of the structural, infrared spectra and visible spectra of a series of azo dyes preparation of salicylic acid and 2,4-dihydroxy benzoic acid derivatives as the coupling component. The preparation of these azo dyes with salicylic acid and 2,4-dihydroxy benzoic acid derivatives (salicylic acid, methyl salicylate, ethyl salicylate, butyl salicylate, methyl 2,4-dihydroxy benzoate, ethyl 2,4-dihydroxy benzoate, salicylaldehyde, salicylamide, 2,4-dihydroxy benzamide, salicylaldoxime) have been investigated theoretically by performing HF and DFT levels of theory using the standard 6-31G* basis set. The optimized geometries and calculated vibrational frequencies are evaluated via comparison with experimental values. The vibrational spectral data obtained from solid phase FT-IR spectra are assigned modes based on the results of the theoretical calculations. The observed spectra are found to be in good agreement with the calculations.

  16. Spectral and structural studies of the anti-cancer drug Flutamide by density functional theoretical method

    NASA Astrophysics Data System (ADS)

    Mariappan, G.; Sundaraganesan, N.

    2014-01-01

    A comprehensive screening of the more recent DFT theoretical approach to structural analysis is presented in this section of theoretical structural analysis. The chemical name of 2-methyl-N-[4-nitro-3-(trifluoromethyl)phenyl]-propanamide is usually called as Flutamide (In the present study it is abbreviated as FLT) and is an important and efficacious drug in the treatment of anti-cancer resistant. The molecular geometry, vibrational spectra, electronic and NMR spectral interpretation of Flutamide have been studied with the aid of density functional theory method (DFT). The vibrational assignments of the normal modes were performed on the basis of the PED calculations using the VEDA 4 program. Comparison of computational results with X-ray diffraction results of Flutamide allowed the evaluation of structure predictions and confirmed B3LYP/6-31G(d,p) as accurate for structure determination. Application of scaling factors for IR and Raman frequency predictions showed good agreement with experimental values. This is supported the assignment of the major contributors of the vibration modes of the title compound. Stability of the molecule arising from hyperconjugative interactions leading to its bioactivity, charge delocalization have been analyzed using natural bond orbital (NBO) analysis. NMR chemical shifts of the molecule were calculated using the gauge independent atomic orbital (GIAO) method. The comparison of measured FTIR, FT-Raman, and UV-Visible data to calculated values allowed assignment of major spectral features of the title molecule. Besides, Frontier molecular orbital analyze was also investigated using theoretical calculations.

  17. Studies of the electronic structure and biological activity of chosen 1,4-benzodiazepines by 35Cl NQR spectroscopy and DFT calculations

    NASA Astrophysics Data System (ADS)

    Bronisz, K.; Ostafin, M.; Poleshchuk, O. Kh.; Mielcarek, J.; Nogaj, B.

    2006-11-01

    Selected derivatives of 1,4-benzodiazepine: lorazepam, lormetazepam, oxazepam and temazepam, used as active substances in anxiolytic drugs, have been studied by 35Cl NQR method in order to find the correlation between electronic structure and biological activity. The 35Cl NQR resonance frequencies ( νQ) measured at 77 K have been correlated with the following parameters characterising their biological activity: biological half-life period ( t0.5), affinity to benzodiazepine receptor (IC 50) and mean dose equivalent. The results of experimental study of some benzodiazepine derivatives by nuclear quadrupole resonance of 35Cl nuclei are compared with theoretical results based on DFT calculations which were carried out by means of Gaussian'98 W software.

  18. Synthesis, conformational and theoretical studies of 1,n-di(2-formyl-4-phenylazophenoxy)alkanes

    NASA Astrophysics Data System (ADS)

    Balachander, R.; Manimekalai, A.

    2016-01-01

    1,n-di(2-Formyl-4-phenylazophenoxy)alkanes 1 and 2 and 1,3-di(2-formyl-4-phenylazophenoxymethyl)benzene 3 were synthesis and characterized by FT-IR, UV-Vis, 1H, 13C NMR and mass spectral studies. The stable conformations of 1-3 were predicted theoretically and selected geometrical parameters were derived from optimized structures. The molecular parameters of HOMO-LUMO energies, polarizability, hyperpolarizability, natural bond orbital (NBO), atom in molecule (AIM) analysis and molecular electrostatic potential (MEP) surfaces were determined by the density functional theory (DFT) method and analysed.

  19. Fullerene Cyanation Does Not Always Increase Electron Affinity: Experimental and Theoretical Study

    SciTech Connect

    Clikeman, Tyler T.; Deng, Shihu; Popov, Alexey A.; Wang, Xue B.; Strauss, Steven H.; Boltalina, Olga V.

    2015-01-01

    The electron affinities of C70 derivatives with trifluoromethyl, methyl and cyano groups were studied experimentally and theoretically using low-temperature photoelectron spectroscopy (LT PES) and density functional theory (DFT). The electronic effects of these functional groups were determined and found to be highly dependent on the addition patterns. Substitution of CF3 for CN for the same addition pattern increases the experimental electron affinity by 70 meV per substitution. The synthesis of a new fullerene derivative, C70(CF3)10(CN)2, is reported for the first time

  20. Enhancing reactivity of carbonyl compounds via hydrogen-bond formation. A DFT study of the hetero-Diels-Alder reaction between butadiene derivative and acetone in chloroform.

    PubMed

    Domingo, Luis R; Andrés, Juan

    2003-10-31

    To examine how hydrogen-bond (HB) formation involving chloroform solvent molecules influences the chemical reactivity of ketones, the hetero-Diels-Alder reaction of N,N-dimethyl-1-amino-3-methoxy-1,3-butadiene and acetone has been studied by using density functional theory (DFT) at the B3LYP/6-31G level. The effects of the chloroform on the activation energies have been modeled by means of discrete-continuum models. In the gas phase, the formation of specific HB between acetone and one and two chloroform molecules decreases the activation barriers from 19.3 to 13.6 and 8.5 kcal/mol, respectively. Inclusion of solvent effects by means of combined discrete and polarizable continuum models yields a change of molecular mechanism from a concerted to a two-step mechanism, and the first nucleophilic step is the rate-limiting step. The corresponding values of activation barriers in chloroform are 18.6 kcal/ mol (no HB), 13.5 kcal/mol (one HB), and 9.6 kcal/mol (two HBs). These theoretical results account for the experimental observation that chloroform accelerates the reaction more markedly than more polar aprotic solvent such as acetonitrile. A DFT analysis of the global electrophilicity power of the reagents provides a sound explanation about the catalytic effects of chloroform.

  1. Hydrogen Adsorption, Absorption and Diffusion on and in Transition Metal Surfaces: A DFT Study

    SciTech Connect

    Ferrin, Peter A.; Kandoi, Shampa; Nilekar, Anand U.; Mavrikakis, Manos

    2012-01-04

    Periodic, self-consistent DFT-GGA(PW91) calculations are used to study the interaction of hydrogen with different facets of seventeen transition metals—the (100) and (111) facets of face-centered cubic (fcc) metals, the (0001) facet of hexagonal-close packed (hcp) metals, and the (100) and (110) facets of body-centered cubic (bcc) metals. Calculated geometries and binding energies for surface and subsurface hydrogen are reported and are, in general, in good agreement with both previous modeling studies and experimental data. There are significant differences between the binding on the close-packed and more open (100) facets of the same metal. Geometries of subsurface hydrogen on different facets of the same metal are generally similar; however, binding energies of hydrogen in the subsurface of the different facets studied showed significant variation. Formation of surface hydrogen is exothermic with respect to gas-phase H₂ on all metals studied with the exception of Ag and Au. For each metal studied, hydrogen in its preferred subsurface state is always less stable than its preferred surface state. The magnitude of the activation energy for hydrogen diffusion from the surface layer into the first subsurface layer is dominated by the difference in the thermodynamic stability of these two states. Diffusion from the first subsurface layer to one layer further into the bulk does not generally have a large thermodynamic barrier but still has a moderate kinetic barrier. Despite the proximity to the metal surface, the activation energy for hydrogen diffusion from the first to the second subsurface layer is generally similar to experimentally-determined activation energies for bulk diffusion found in the literature. There are also some significant differences in the activation energy for hydrogen diffusion into the bulk through different facets of the same metal.

  2. Theoretical issues in the study of asexuality.

    PubMed

    DeLuzio Chasin, C J

    2011-08-01

    Academic interest in asexual people is new and researchers are beginning to discuss how to proceed methodologically and conceptually with the study of asexuality. This article explores several of the theoretical issues related to the study of asexuality. Researchers have tended to treat asexuality either as a distinct sexual orientation or as a lack of sexual orientation. Difficulties arise when asexual participants are inconsistent in their self-identification as asexual. Distinguishing between sexual and romantic attraction resolves this confusion, while simultaneously calling into question conceptualizations of the asexual population as a single homogenous group. Arguments are considered in favor of exploring diversity within the asexual population, particularly with respect to gender and romantic orientation, proposing that the categorical constructs employed in (a)sexuality research be replaced with continuous ones. Furthermore, given the recently noted bias toward including only self-identified asexuals, as opposed to non-self-identified asexuals or "potential-asexuals," in research about asexuality, the nature and meaning of asexual self-identification are discussed. Particular attention is paid to the theoretical importance of acknowledging asexual self-identification or lack thereof in future research into asexuality. This article discusses what these current theoretical issues mean for the study of asexuality and sexuality more generally, including a brief consideration of ethical implications for research with asexual participants. Finally, directions for future research are suggested.

  3. Can Cyclen Bind Alkali Metal Azides? A DFT Study as a Precursor to Synthesis.

    PubMed

    Bhakhoa, Hanusha; Rhyman, Lydia; Lee, Edmond P F; Ramasami, Ponnadurai; Dyke, John M

    2016-03-18

    Can cyclen (1,4,7,10-tetraazacyclododecane) bind alkali metal azides? This question is addressed by studying the geometric and electronic structures of the alkali metal azide-cyclen [M(cyclen)N3] complexes using density functional theory (DFT). The effects of adding a second cyclen ring to form the sandwich alkali metal azide-cyclen [M(cyclen)2N3] complexes are also investigated. N3(-) is found to bind to a M(+) (cyclen) template to give both end-on and side-on structures. In the end-on structures, the terminal nitrogen atom of the azide group (N1) bonds to the metal as well as to a hydrogen atom of the cyclen ring through a hydrogen bond in an end-on configuration to the cyclen ring. In the side-on structures, the N3 unit is bonded (in a side-on configuration to the cyclen ring) to the metal through the terminal nitrogen atom of the azide group (N1), and through the other terminal nitrogen atom (N3) of the azide group by a hydrogen bond to a hydrogen atom of the cyclen ring. For all the alkali metals, the N3-side-on structure is lowest in energy. Addition of a second cyclen unit to [M(cyclen)N3] to form the sandwich compounds [M(cyclen)2N3] causes the bond strength between the metal and the N3 unit to decrease. It is hoped that this computational study will be a precursor to the synthesis and experimental study of these new macrocyclic compounds; structural parameters and infrared spectra were computed, which will assist future experimental work.

  4. Can Cyclen Bind Alkali Metal Azides? A DFT Study as a Precursor to Synthesis.

    PubMed

    Bhakhoa, Hanusha; Rhyman, Lydia; Lee, Edmond P F; Ramasami, Ponnadurai; Dyke, John M

    2016-03-18

    Can cyclen (1,4,7,10-tetraazacyclododecane) bind alkali metal azides? This question is addressed by studying the geometric and electronic structures of the alkali metal azide-cyclen [M(cyclen)N3] complexes using density functional theory (DFT). The effects of adding a second cyclen ring to form the sandwich alkali metal azide-cyclen [M(cyclen)2N3] complexes are also investigated. N3(-) is found to bind to a M(+) (cyclen) template to give both end-on and side-on structures. In the end-on structures, the terminal nitrogen atom of the azide group (N1) bonds to the metal as well as to a hydrogen atom of the cyclen ring through a hydrogen bond in an end-on configuration to the cyclen ring. In the side-on structures, the N3 unit is bonded (in a side-on configuration to the cyclen ring) to the metal through the terminal nitrogen atom of the azide group (N1), and through the other terminal nitrogen atom (N3) of the azide group by a hydrogen bond to a hydrogen atom of the cyclen ring. For all the alkali metals, the N3-side-on structure is lowest in energy. Addition of a second cyclen unit to [M(cyclen)N3] to form the sandwich compounds [M(cyclen)2N3] causes the bond strength between the metal and the N3 unit to decrease. It is hoped that this computational study will be a precursor to the synthesis and experimental study of these new macrocyclic compounds; structural parameters and infrared spectra were computed, which will assist future experimental work. PMID:26880648

  5. Theoretical study on a water muffler

    NASA Astrophysics Data System (ADS)

    Du, T.; Chen, Y. W.; Miao, T. C.; Wu, D. Z.

    2016-05-01

    Theoretical computation on a previously studied water muffler is carried out in this article. Structure of the water muffler is composed of two main parts, namely, the Kevlar- reinforced rubber tube and the inner-noise-reduction structure. Rubber wall of the rubber tube is assumed to function as rigid wall lined with sound absorption material and is described by a complex radial wave number. Comparison among the results obtained from theoretical computation, FEM (finite element method) simulation and experiment of the rubber tube and that of the water muffler has been made. The theoretical results show a good accordance in general tendency with the FEM simulated and the measured results. After that, parametric study on the diameter of the inner structure and that of the rubber tube is conducted. Results show that the diameter of the left inner structure has the most significant effect on the SPL of the water muffler due to its location and its effect on the diameter ratio D2/D1.

  6. Partial vs. integer electron transfer in molecular assemblies: On the importance of multideterminant theoretical description and the necessity to find a solution within DFT

    NASA Astrophysics Data System (ADS)

    Geskin, Victor; Stadler, Robert; Cornil, Jérôme

    2015-01-01

    Nonequilibrium Green's function techniques (NEGF) combined with density functional theory (DFT) calculations have become a standard tool for the description of electron transport through single molecule nanojunctions in the coherent tunneling (CT) regime. However, the applicability of these methods for transport in the Coulomb blockade (CB) regime is questionable. For a molecular assembly model, with multideterminant calculations as a benchmark, we show how a closed-shell ansatz, the usual ingredient of mean-field methods, fails to properly describe the step like electron-transfer characteristic in weakly coupled systems. Detailed analysis of this misbehavior allows us to propose a practical scheme to extract the addition energies in the CB regime for single-molecule junctions from NEGF DFT within the local-density approximation (closed shell). We show also that electrostatic screening effects are taken into account within this simple approach.

  7. Partial vs. integer electron transfer in molecular assemblies: On the importance of multideterminant theoretical description and the necessity to find a solution within DFT

    SciTech Connect

    Geskin, Victor; Cornil, Jérôme; Stadler, Robert

    2015-01-22

    Nonequilibrium Green's function techniques (NEGF) combined with density functional theory (DFT) calculations have become a standard tool for the description of electron transport through single molecule nanojunctions in the coherent tunneling (CT) regime. However, the applicability of these methods for transport in the Coulomb blockade (CB) regime is questionable. For a molecular assembly model, with multideterminant calculations as a benchmark, we show how a closed-shell ansatz, the usual ingredient of mean-field methods, fails to properly describe the step like electron-transfer characteristic in weakly coupled systems. Detailed analysis of this misbehavior allows us to propose a practical scheme to extract the addition energies in the CB regime for single-molecule junctions from NEGF DFT within the local-density approximation (closed shell). We show also that electrostatic screening effects are taken into account within this simple approach.

  8. A theoretical insight for solvent effect on myoglobin assay of W(CO)4L2 type novel complexes with DFT/TDDFT

    NASA Astrophysics Data System (ADS)

    Üstün, Elvan; Demi˙r, Serpil; Coşkun, Feyzullah; Kaloğlu, Murat; Şahi˙n, Onur; Büyükgüngör, Orhan; Özdemi˙r, İsmail

    2016-11-01

    Novel tetracarbonyl complexes of type W(CO)4L2 (L: 4-chlorobenzylimidazoline; 4-methylbenzylimidazoline; 3,5-dimethylbenzylimidazoline; 2,4,6-trimethylbenzylimidazoline; 2,3,5,6- tetramethylbenzylimidazoline) were synthesized. Then newly synthesized novel compounds were characterized by IR, 1H NMR, 13C NMR and LC-MS. The characterizations of two of the complexes have also been confirmed with single crystal X-Ray diffraction and DFT optimization results of these complexes have been compared with single crystal results. We have investigated the solvent effect on the structure and metal-to-ligand charge transfer (MLCT) transitions with DFT/TDDFT calculations with ORCA package program with BP86 functional.

  9. DFT STUDY OF ALPHA-MALTOSE: INFLUENCE OF HYDROXYL ORIENTATIONS ON THE GLYCOSIDIC BOND

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The result of DFT geometry optimization of 68 unique alpha-maltose conformers at the B3LYP/6-311++G** level of theory is described. Particular attention is paid to the hydroxyl group rotational positions and their influence on the glycosidic bond dihedral angles. The orientation of lone pair elect...

  10. 27ps DFT Molecular Dynamics Simulation of a-maltose: A Reduced Basis Set Study.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    DFT molecular dynamics simulations are time intensive when carried out on carbohydrates such as alpha-maltose, requiring up to three or more weeks on a fast 16-processor computer to obtain just 5ps of constant energy dynamics. In a recent publication [1] forces for dynamics were generated from B3LY...

  11. Structural studies of pyrido[1,2- c]pyrimidine derivatives by 13C CPMAS NMR, X-ray diffraction and GIAO/DFT calculations

    NASA Astrophysics Data System (ADS)

    Pisklak, Maciej; Król, Marek; Herold, Franciszek; Wolska, Irena; Wawer, Iwona

    2008-12-01

    New 1-aryl- or 1-heteroaryl-piperazinylbutyl derivatives with pyrido[1,2- c]pyrimidine imide moiety, with the expected higher selectivity to 5-HT 1A receptors, have been synthesized. Five hydrochlorides and one base were studied by solid-state 13C CPMAS NMR spectroscopy. 13C chemical shifts indicated that the piperazine ring nitrogen N-1 was protonated. The crystal structure of the base (with 4'F, 3″-CF 3 substituents) was determined by X-ray crystallography. The pyridopyrimidine fragment is essentially planar, and aromatic substituent at C4 is twisted by 59.0°. The crystals are stabilized mainly by the C dbnd O…H sbnd C interactions. The analysis was completed by theoretical calculations of the shielding constants at the GIAO/DFT (B3LYP/6-311+G ∗∗) level.

  12. Electron density distribution in cladribine (2-chloro-2‧-deoxyadenosine) - A drug against leukemia and multiple sclerosis - Studied by multinuclear NQR spectroscopy and DFT calculations

    NASA Astrophysics Data System (ADS)

    Latosińska, J. N.; Latosińska, M.; Seliger, J.; Žagar, V.; Kazimierczuk, Z.

    2009-07-01

    2-Chloro-2'-deoxyadenosine (Cladribine) chemotherapeutic drug has been studied experimentally in solid state by 35Cl NQR and NMR-NQR double resonance and theoretically by the Density Functional Theory. Fifteen resonance frequencies on 14N have been detected and assigned to particular nitrogen sites in the 2-CdA molecule. The effects of tautomerism, regioisomerism, conformations and molecular aggregations, related to intermolecular hydrogen bond formation, on the NQR parameters have been analysed within the DFT and AIM ( Atoms in Molecules) formalism. The properties of the whole molecule, the so-called global reactivity descriptors, have been calculated for a comparison of both syn and anti conformations of 2-CdA molecule to check the effect of crystal packing on molecular conformation.

  13. DFT-BASED AB INITIO STUDY OF THE ELECTRONIC AND OPTICAL PROPERTIES OF CESIUM BASED FLUORO-PEROVSKITE CsMF3 (M = Ca AND Sr)

    NASA Astrophysics Data System (ADS)

    Harmel, M.; Khachai, H.; Ameri, M.; Khenata, R.; Baki, N.; Haddou, A.; Abbar, B.; UǦUR, Ş.; Omran, S. Bin; Soyalp, F.

    2012-12-01

    Density functional theory (DFT) is performed to study the structural, electronic and optical properties of cubic fluoroperovskite AMF3 (A = Cs; M = Ca and Sr) compounds. The calculations are based on the total-energy calculations within the full-potential linearized augmented plane wave (FP-LAPW) method. The exchange-correlation potential is treated by local density approximation (LDA) and generalized gradient approximation (GGA). The structural properties, including lattice constants, bulk modulus and their pressure derivatives are in very good agreement with the available experimental and theoretical data. The calculations of the electronic band structure, density of states and charge density reveal that compounds are both ionic insulators. The optical properties (namely: the real and the imaginary parts of the dielectric function ɛ(ω), the refractive index n(ω) and the extinction coefficient k(ω)) were calculated for radiation up to 40.0 eV.

  14. Main chemical species and molecular structure of deep eutectic solvent studied by experiments with DFT calculation: a case of choline chloride and magnesium chloride hexahydrate.

    PubMed

    Zhang, Chao; Jia, Yongzhong; Jing, Yan; Wang, Huaiyou; Hong, Kai

    2014-08-01

    The infrared spectrum of deep eutectic solvent of choline chloride and magnesium chloride hexahydrate was measured by the FTIR spectroscopy and analyzed with the aid of DFT calculations. The main chemical species and molecular structure in deep eutectic solvent of [MgClm(H2O)6-m]2-m and [ChxCly]x+y complexes were mainly identified and the active ion of magnesium complex during the electrochemical process was obtained. The mechanism of the electrochemical process of deep eutectic solvent of choline chloride and magnesium chloride hexahydrate was well explained by combination theoretical calculations and experimental. Besides, based on our results we proposed a new system for the dehydration study of magnesium chloride hexahydrate.

  15. Structural and spectroscopic characterization of ettringite mineral -combined DFT and experimental study

    NASA Astrophysics Data System (ADS)

    Scholtzová, Eva; Kucková, Lenka; Kožíšek, Jozef; Tunega, Daniel

    2015-11-01

    The structure of the ettringite mineral was studied by means of FTIR spectroscopy and single crystal X-ray diffraction method. The experimental study was combined with the first principle calculations based on density functional theory (DFT) method. Predicted structural parameters (unit cell vectors and positions of heavy atoms) are in a very good agreement with the experimental data. Moreover, calculations also enabled to refine the positions of the hydrogen atoms not determined precisely by the single crystal X-ray measurement. The detailed analysis of the hydrogen bonds in the ettringite structure was performed and several groups of the hydrogen bonds were classified. It was found that the water molecules from the coordination sphere of Ca2+ cations act as proton donors in moderate O-H···O hydrogen bonds with SO 32- anions. Further, multiple O-H···O hydrogen bonds were identified among water molecules themselves. In addition, also hydroxyl groups from the [Al(OH)6]3- octahedral units are involved in the weak O-H···O hydrogen bonding with the water molecules. The calculated vibrational spectrum showed all typical features observed in the experimental FTIR spectrum. Moreover, performing the analysis of the calculated spectrum, all vibrational modes were distinguished and assigned. Such a complete analysis of the measured IR and/or Raman spectra is not fully possible, specifically for the region below 1500 cm-1, which is characterized by a complex curve with many overlapped bands. A comparison of the vibrational spectra of ettringite and thaumasite (mineral structurally similar to ettringite) revealed the origin of the most important differences between them.

  16. Synthesis, photo-physical and DFT studies of ESIPT inspired novel 2-(2',4'-dihydroxyphenyl) benzimidazole, benzoxazole and benzothiazole.

    PubMed

    Patil, Vikas S; Padalkar, Vikas S; Tathe, Abhinav B; Gupta, Vinod D; Sekar, N

    2013-09-01

    Novel ESIPT inspired benzimidazole, benzoxazole and benzothiazole were synthesized from 2,4-dihydroxy benzoic acid and 1,2-phenelenediamine, 2-aminophenol, and 2-aminothiophenol respectively. The synthesized 2-(2',4'-dihydroxyphenyl) benzimidazole, benzoxazole and benzothiazole are fluorescent and the emission characteristic are very sensitive to the micro-environment. They show a single absorption and dual emission with large Stokes shift originating from excited state intramolecular proton transfer. The absorption-emission characteristics of all these compounds are studied as a function of pH. The change in the electronic transition, energy levels, and orbital diagrams of synthesized compounds were investigated by the molecular orbital calculation and were correlated with the experimental spectral emission. Experimental absorption and emission wavelengths are in good agreement with those predicted using the Density Functional Theory (DFT) and Time-Dependent Density Functional Theory (TD-DFT) [B3LYP/6-31G(d)].

  17. Experimental and DFT studies on the antioxidant activity of a C-glycoside from Rhynchosia capitata.

    PubMed

    Praveena, R; Sadasivam, K; Kumaresan, R; Deepha, V; Sivakumar, Raman

    2013-02-15

    Rhynchosia capitata (=Glycine capitata) Heyne ex roth, was found to possess polyphenolics including flavonoids, which acts as potential antioxidant. The study of ethanolic extract of roots and leaves reveals that the leaves possess high polyphenolics including flavonoids than roots. This was also confirmed by DPPH radical scavenging activity. Leaf powder of the plant was extracted with different solvents by soxhlet apparatus in the order of increasing polarity. The DPPH scavenging activity of methanol fraction was found to be high compared to the crude extract and other fractions. Nitric oxide scavenging activity was dominant in chloroform fraction compared to methanol fraction. Presence of flavonoids especially vitexin, a C-glycoside in methanol and chloroform fractions were confirmed by high pressure thin layer chromatography (HPTLC) analysis. The structural and molecular characteristics of naturally occurring flavonoid, vitexin was investigated in gas phase using density functional theory (DFT) approach with B3LYP/6-311G(d,p) level of theory. Analysis of bond dissociation enthalpy (BDE) reveals that the OH site that requires minimum energy for dissociation is 4'-OH from B-ring. To explore the radical scavenging activity of vitexin, the adiabatic ionization potential, electron affinity, hardness, softness, electronegativity and electrophilic index properties were computed and interpreted. The nonvalidity of Koopman's theorem has been verified by the computation of Eo and Ev energy magnitudes. Interestingly, from BDE calculations it was observed that BDE for 4'-OH, 5-OH and 7-OH are comparatively low for vitexin than its aglycone apigenin and this may be due to the presence of C-8 glucoside in vitexin. To substantiate this, plot of frontier molecular orbital and spin density distribution analysis for neutral and the corresponding radical species for the compound vitexin have been presented.

  18. Experimental and DFT studies on the antioxidant activity of a C-glycoside from Rhynchosia capitata

    NASA Astrophysics Data System (ADS)

    Praveena, R.; Sadasivam, K.; Kumaresan, R.; Deepha, V.; Sivakumar, Raman

    2013-02-01

    Rhynchosia capitata (=Glycine capitata) Heyne ex roth, was found to possess polyphenolics including flavonoids, which acts as potential antioxidant. The study of ethanolic extract of roots and leaves reveals that the leaves possess high polyphenolics including flavonoids than roots. This was also confirmed by DPPH radical scavenging activity. Leaf powder of the plant was extracted with different solvents by soxhlet apparatus in the order of increasing polarity. The DPPH scavenging activity of methanol fraction was found to be high compared to the crude extract and other fractions. Nitric oxide scavenging activity was dominant in chloroform fraction compared to methanol fraction. Presence of flavonoids especially vitexin, a C-glycoside in methanol and chloroform fractions were confirmed by high pressure thin layer chromatography (HPTLC) analysis. The structural and molecular characteristics of naturally occurring flavonoid, vitexin was investigated in gas phase using density functional theory (DFT) approach with B3LYP/6-311G(d,p) level of theory. Analysis of bond dissociation enthalpy (BDE) reveals that the OH site that requires minimum energy for dissociation is 4'-OH from B-ring. To explore the radical scavenging activity of vitexin, the adiabatic ionization potential, electron affinity, hardness, softness, electronegativity and electrophilic index properties were computed and interpreted. The nonvalidity of Koopman's theorem has been verified by the computation of Eo and Ev energy magnitudes. Interestingly, from BDE calculations it was observed that BDE for 4'-OH, 5-OH and 7-OH are comparatively low for vitexin than its aglycone apigenin and this may be due to the presence of C-8 glucoside in vitexin. To substantiate this, plot of frontier molecular orbital and spin density distribution analysis for neutral and the corresponding radical species for the compound vitexin have been presented.

  19. Vibrational spectroscopic studies and DFT calculations on tribromoacetate and tribromoacetic acid in aqueous solution.

    PubMed

    Rudolph, Wolfram W; Irmer, Gert

    2011-09-01

    Aqueous solutions of sodium tribromoacetate (NaCBr3CO2) and its corresponding acid (CBr3COOH) have been studied using Raman and infrared spectroscopy. The spectra of the species in solution were assigned according to symmetry Cs. Characteristic bands of CBr3CO2-(aq) and the tribromoacetic acid, CBr3COOH(aq), are discussed. For the hydrated anion, the CO2 group, the symmetric CO2 stretching mode at 1332 cm(-1) and the asymmetric stretching mode at 1651 cm(-1) are characteristic while the CO mode at 1730 cm(-1) is characteristic for the spectra of the acid. The stretching mode, νC-C at 912cm(-1) for CBr3CO2-(aq) is 10 cm(-1) lower in the anion compared with that of the acid. These characteristic modes are compared to those in acetate, CH3CO2-(aq). Coupling of the modes are fairly extensive and therefore DFT calculations have been carried out in order to compare the measured spectra with the calculated ones. The geometrical parameters such as bond length and bond angles of the tribromoacetate, and tribromoacetic acid have been obtained and may be compared with the ones published for other acetates and their conjugated acids. CBr3COOH(aq) is a moderately strong acid and the pKa value derived from quantitative Raman measurements is equal to -0.23 at 23°C. The deuterated acid CBr3COOD in heavy water has been measured as well and the assignments were given.

  20. [QSPR study on the lipid-water partition coefficients of dioxins based on DFT].

    PubMed

    Gu, Cheng-Gang; Jiang, Xin; Bian, Yong-Rong; Yu, Gui-Fen

    2008-05-01

    With computational method of density functional theory (DFT), quantified model study of equilibrium partitioning properties of polychlorinated dibenzo-p-dioxins (PCDDs) and dibenzofurans (PCDFs) between lipid phase of organism (Poecilia reticulata) and water phase was carried out based on quantum chemical and further calculated parameters, namely frontier orbital energies, entropies, traceless quadrupole moments as well as molecular absolute hardness, electronegativities and electrophilicity indices, which all were derived from full geometry optimization of PCDD/Fs. Through multiple linear regression (MLR) analyses, quantitative structure-property relationship (QSPR) was successfully proposed in the form of multi-parameter quadratic function: lgK(hw) = 5.343 - 0.001(S - 125.480)(2) - 0.355(omega - 3.239)(2) + 0.006( Q = - 2.950)(2) - 22.728(eta - 2.365)(2). It was shown that the obtained QSPR had higher goodness of fitting and robustness, determination coefficient and cross-validated correlation coefficient being 0.943 and 0.908 respectively, and it was also provided with ideal interior and exterior predictive abilities so that it could be used for prediction of unknown lipid-water partitioning properties. By comparison, QSPR in this research was superior to that from previous SOFA (solubility parameter for fate analysis) method on the whole. Lipid-water partitioning properties (coefficients) of PCDD/Fs should be mainly related to molecular volume and aryl hydrocarbon molecular interactions determined by charge distribution. To a certain degree, they also might be influenced by potential biotransformation and molecular reactivity.

  1. Semi- and thiosemicarbazide Mn(II) complexes: Characterization, DFT and biological studies

    NASA Astrophysics Data System (ADS)

    Yousef, T. A.; Alduaij, O. K.; Ahmed, Sara F.; Abu El-Reash, G. M.; El-Gammal, O. A.

    2016-09-01

    One NO and two NOS donor ligands have been prepared by addition ethanolic suspension of 2-hydrazino-2-oxo-N-phenyl-acetamide to phenyl isocyanate (H2PAPS), phenyl isothiocyanate (H2PAPT) and benzoyl isothiocyanate (H2PABT). The Mn (II) complexes were prepared from the chloride salt and characterized by conventional techniques. The isolated complexes were assigned the formulaes, [Mn(HPAPS)2], [Mn(HPAPT)Cl] and [Mn(HPABT)Cl(H2O)2], respectively. The IR study of ligands and their complexes shows that H2PAPS behaves as a mononegative tridentate via both CO of hydrazide moiety in keto and deprotonated enol form and CN (azomethine) due to enolization of CO cyanate moiety without deprotonation. H2PAPT behaves as mononegative tridentate via CO of hydrazide moiety, deprotonated thiol CS and NH group. Finally H2PABT behaves as mononegative tridentate via deprotonated enolized CO of hydrazide moiety, CO of benzoyl moiety and NH group. The IR spectra of ligands from DFT calculations are compared with those obtained experimentally. Also, HOMO, LUMO, the bond lengths, bond angles, and dipole moments have been calculated. The calculated HOMO-LUMO energy gap reveals that charge transfer occurs within the molecule. The binding energy values display the high stability of complexes. The kinetic and thermodynamic parameters were determined by Coats-Redfern and Horowitz-Metzger methods. The antibacterial activities were also tested against Bacillus subtilis and Escherichia coli bacteria. Finally, the antitumor activities of the Ligands and their Mn(II) complexes have been evaluated against liver (HePG2) and breast (MCF-7) cancer cells.

  2. Experimental and DFT studies of the conversion of ethanol and acetic acid on PtSn-based catalysts.

    PubMed

    Alcala, Rafael; Shabaker, John W; Huber, George W; Sanchez-Castillo, Marco A; Dumesic, James A

    2005-02-17

    Reaction kinetics studies were conducted for the conversions of ethanol and acetic acid over silica-supported Pt and Pt/Sn catalysts at temperatures from 500 to 600 K. Addition of Sn to Pt catalysts inhibits the decomposition of ethanol to CO, CH4, and C2H6, such that PtSn-based catalysts are active for dehydrogenation of ethanol to acetaldehyde. Furthermore, PtSn-based catalysts are selective for the conversion of acetic acid to ethanol, acetaldehyde, and ethyl acetate, whereas Pt catalysts lead mainly to decomposition products such as CH4 and CO. These results are interpreted using density functional theory (DFT) calculations for various adsorbed species and transition states on Pt(111) and Pt3Sn(111) surfaces. The Pt3Sn alloy slab was selected for DFT studies because results from in situ (119)Sn Mössbauer spectroscopy and CO adsorption microcalorimetry of silica-supported Pt/Sn catalysts indicate that Pt-Sn alloy is the major phase present. Accordingly, results from DFT calculations show that transition-state energies for C-O and C-C bond cleavage in ethanol-derived species increase by 25-60 kJ/mol on Pt3Sn(111) compared to Pt(111), whereas energies of transition states for dehydrogenation reactions increase by only 5-10 kJ/mol. Results from DFT calculations show that transition-state energies for CH3CO-OH bond cleavage increase by only 12 kJ/mol on Pt3Sn(111) compared to Pt(111). The suppression of C-C bond cleavage in ethanol and acetic acid upon addition of Sn to Pt is also confirmed by microcalorimetric and infrared spectroscopic measurements at 300 K of the interactions of ethanol and acetic acid with Pt and PtSn on a silica support that had been silylated to remove silanol groups. PMID:16851198

  3. Experimental, theoretical and docking studies of 2-hydroxy Schiff base type compounds derived from 2-amino-4-chlorobenzenethiol

    NASA Astrophysics Data System (ADS)

    Kusmariya, Brajendra S.; Mishra, A. P.

    2015-12-01

    We report here synthesis, DFT, Docking and Fluorescence studies of three Schiff base organic compounds viz. 2-{(E)-[(5-chloro-2-sulfanylphenyl)imino]methyl}phenol (1); 2,4-dichloro-6-{(E)-[(5-chloro-2-sulfanylphenyl)imino]methyl}phenol (2) and 2-{(E)-[(5-chloro-2-sulfanylphenyl) imino] methyl}-5-(diethylamino) phenol (3). These compounds have been characterized by elemental, FTIR, electronic and 1H NMR spectral techniques. Spectroscopic studies reveal that all the compounds exist in enol-form in the solid state whereas keto and enol, both forms exist in solution. The fluorescence behavior has been studied in DMF solvents and 1 &2 compound exhibit more efficient fluorescence properties. The molecular geometry of all the compounds in the ground state has been computed using the Hartree-Fock (HF) and density functional theory (DFT) with the 6-31++G basis set. The theoretical electronic absorption spectra of the compounds have been predicted using TD-DFT and TD-HF methods and compared with experimental spectral results. The predicted nonlinear optical properties of all the compounds are higher than those of urea. In addition to DFT calculations; frequency calculations, mulliken charge distribution, HOMO-LUMO and molecular electrostatic potential (MEP) have also been computed at the same level of theory. Molecular docking studies of the compounds in the active site of CAII (PDB code: 1CNX) have been performed to predict their possible binding modes in the active site of target carbonic anhydrase II enzyme.

  4. FT-IR, FT-Raman, UV/Vis spectra and fluorescence imaging studies on 2-(bromoacetyl)benzo(b)furan by ab initio DFT calculations.

    PubMed

    Veeraiah, A

    2015-08-01

    The vibrational and electronic properties of 2-(bromoacetyl)benzo(b)furan have been studied in the ground state using experimental techniques (FT-IR, FT-Raman and UV) and density functional theory (DFT) employing B3LYP exchange correlation with the 6-31G(d,p) basis set. The theoretically calculated optimized parameters, vibrational frequencies etc., were compared with the experimental values, which yield good agreement between the observed and calculated values. The complete assignments of fundamental modes were performed on the basis of the potential energy distribution (PED). UV-visible spectrum of the compound was recorded in the region 300-600 nm and compared with the theoretical spectrum obtained from SAC-CI calculations. A good agreement is observed between the experimental and theoretical spectra. Fluorescence microscopic imaging studies proved that the compound can be used as one of the potential light sources in the yellow region with suitable excitation. Further, the predicted electronic transitions between the MOs 47→64, 52→62, 56→65, 56→72, 56→77 of the compound show a strong line at 569.8 nm.

  5. Alcohol cold starting - A theoretical study

    NASA Technical Reports Server (NTRS)

    Browning, L. H.

    1983-01-01

    Two theoretical computer models have been developed to study cold starting problems with alcohol fuels. The first model, a droplet fall-out and sling-out model, shows that droplets must be smaller than 50 microns to enter the cylinder under cranking conditions without being slung-out in the intake manifold. The second model, which examines the fate of droplets during the compression process, shows that the heat of compression can be used to vaporize small droplets (less than 50 microns) producing flammable mixtures below freezing ambient temperatures. While droplet size has the greater effect on startability, a very high compression ratio can also aid cold starting.

  6. Synthesis, structural, conformational and DFT studies of N-3 and O-4 alkylated regioisomers of 5-(hydroxypropyl)pyrimidine

    NASA Astrophysics Data System (ADS)

    Salihović, Mirsada; Osmanović, Amar; Špirtović-Halilović, Selma; Roca, Sunčica; Meščić, Andrijana; Vujisić, Ljubodrag; Trifunović, Snežana; Završnik, Davorka; Sofić, Emin

    2015-07-01

    Because of the great pharmacological potential of the pyrimidine motif, novel C-5 substituted N-3 acyclic and O-4 acyclic pyrimidine derivatives were prepared as an interesting class of compounds for biological evaluation. Introduction of the 2,3-dihydroxypropyl (DHP) and penciclovir (PCV)-like side chains to 2-methoxypyrimidin-4-one (2) afforded a mixture of N- and O-acyclic pyrimidine nucleosides in the ratio of 54: 29 (3:4) and 57:21 (5:6) with N-3 isomer being dominant. Distinction between N- and O-alkylated pyrimidine moiety was deduced from extensive experimental FT-IR, HPLC-MS and 1D (1H, 13C) and 2D (COSY, HMQC and HMBC) NMR analyses. The N-, O-regioisomers were also examined by computational method at density functional theory (DFT) RB3LYP/6-31G(d), 6-31G∗∗ and 6-31+G∗ levels. DFT global chemical reactivity descriptors (total energy, chemical hardness, electronic chemical potential and electrophilicity) were calculated for the isomers and used to predict and describe their relative stability and reactivity. The chemical reactivity indices were related to the C2sbnd N3sbnd C4 bond angle. Theoretical predictions can be used to compare chemical reactivity and stability with future biological evaluation and behaviour of these compounds.

  7. How Many Conformations of Enzymes Should Be Sampled for DFT/MM Calculations? A Case Study of Fluoroacetate Dehalogenase

    PubMed Central

    Li, Yanwei; Zhang, Ruiming; Du, Likai; Zhang, Qingzhu; Wang, Wenxing

    2016-01-01

    The quantum mechanics/molecular mechanics (QM/MM) method (e.g., density functional theory (DFT)/MM) is important in elucidating enzymatic mechanisms. It is indispensable to study “multiple” conformations of enzymes to get unbiased energetic and structural results. One challenging problem, however, is to determine the minimum number of conformations for DFT/MM calculations. Here, we propose two convergence criteria, namely the Boltzmann-weighted average barrier and the disproportionate effect, to tentatively address this issue. The criteria were tested by defluorination reaction catalyzed by fluoroacetate dehalogenase. The results suggest that at least 20 conformations of enzymatic residues are required for convergence using DFT/MM calculations. We also tested the correlation of energy barriers between small QM regions and big QM regions. A roughly positive correlation was found. This kind of correlation has not been reported in the literature. The correlation inspires us to propose a protocol for more efficient sampling. This saves 50% of the computational cost in our current case. PMID:27556449

  8. How Many Conformations of Enzymes Should Be Sampled for DFT/MM Calculations? A Case Study of Fluoroacetate Dehalogenase.

    PubMed

    Li, Yanwei; Zhang, Ruiming; Du, Likai; Zhang, Qingzhu; Wang, Wenxing

    2016-01-01

    The quantum mechanics/molecular mechanics (QM/MM) method (e.g., density functional theory (DFT)/MM) is important in elucidating enzymatic mechanisms. It is indispensable to study "multiple" conformations of enzymes to get unbiased energetic and structural results. One challenging problem, however, is to determine the minimum number of conformations for DFT/MM calculations. Here, we propose two convergence criteria, namely the Boltzmann-weighted average barrier and the disproportionate effect, to tentatively address this issue. The criteria were tested by defluorination reaction catalyzed by fluoroacetate dehalogenase. The results suggest that at least 20 conformations of enzymatic residues are required for convergence using DFT/MM calculations. We also tested the correlation of energy barriers between small QM regions and big QM regions. A roughly positive correlation was found. This kind of correlation has not been reported in the literature. The correlation inspires us to propose a protocol for more efficient sampling. This saves 50% of the computational cost in our current case. PMID:27556449

  9. Synthesis, crystal structure and DFT studies of a dual fluorescent ketamine: Structural changes in the ground and excited states

    NASA Astrophysics Data System (ADS)

    Latha, V.; Balakrishnan, C.; Neelakantan, M. A.

    2015-07-01

    A fluorescent probe 2Z,2‧Z-3,3‧-(4,4‧-methylenebis(4,1-phenylene) bis(azanediyl))bis (1,3-diphenylprop-2-en-1-one) (L) was synthesized and characterized by IR, 1H NMR, ESI-mass, UV-visible and fluorescence spectral techniques. The single crystal analysis illustrates the existence of L in ketamine form. The crystal structure is stabilized by intramolecular and intermolecular hydrogen bonding. The thermal stability of L was studied by TG analysis. The fluorescence spectrum of L shows dual emission, and is due to excited state intramolecular proton transfer (ESIPT) process. This is supported by the high Stokes shift value. Electronic structure calculations of L in the ground and excited state have been carried out using DFT and TD-DFT at B3LYP/6-31G (d,p) level, respectively. The vibrational spectrum was computed at this level and compared with experimental values. Major orbital contributions for the electronic transitions were assigned with the help of TD-DFT. The changes in the Mulliken charge, bond lengths and bond angles between the ground and excited states of the tautomers demonstrate that twisted intramolecular charge transfer (TICT) process occurs along with ESIPT in the excited state.

  10. DFT studies on the palladium-catalyzed dearomatization reaction between naphthalene allyl chloride and allyltributylstannane.

    PubMed

    Cao, Wei; Tian, Dongxu; Han, Dongxue

    2015-10-01

    The Pd-catalyzed dearomatization of naphthalene allyl chloride with allyltributylstannane has been investigated using density functional theory (DFT) calculations at the B3LYP level. The calculations indicate that the (ŋ(1)-allyl)(ŋ(3)-allyl)Pd(PH3) complex is responsible for the formation of ortho-dearomatized product. Moreover it is easy to produce the ortho-dearomatized product when reductive elimination starts from (ŋ(3)-allylnaphthalene)(ŋ(1)-allyl)Pd complex 7, while it is easy to form the para-dearomatized product when reductive elimination starts from (ŋ(3)-allylnaphthalene)(ŋ(1)-allyl)Pd complex 9. The Stille coupling products can't be produced due to high reaction energy barrier. Graphical Abstract Two mechanisms of dearomatization are investigated by DFT, and (ŋ(1)-allyl)(ŋ(3)-allyl)Pd(PH3) complexes are the main intermediates for ortho-dearomatized product.

  11. The guanidine and maleic acid (1:1) complex. The additional theoretical and experimental studies

    NASA Astrophysics Data System (ADS)

    Drozd, Marek; Dudzic, Damian

    2012-04-01

    On the basis of experimental literature data the theoretical studies for guanidinium and maleic acid complex with using DFT method are performed. In these studies the experimental X-ray data for two different forms of investigated crystal were used. During the geometry optimization process one equilibrium structure was found, only. According to this result the infrared spectrum for one theoretical molecule was calculated. On the basis of potential energy distribution (PED) analysis the clear-cut assignments of observed bands were performed. For the calculated molecule with energy minimum the highest occupied molecular orbital (HOMO) and the lowest unoccupied molecular orbital (LUMO) were obtained and graphically illustrated. The energy difference (GAP) between HOMO and LUMO was analyzed. Additionally, the nonlinear properties of this molecule were calculated. The α and β (first and second order) hyperpolarizability values are obtained. On the basis of these results the title crystal was classified as new second order NLO generator.

  12. Spectroscopic (FT-IR and UV-Vis) and theoretical (HF and DFT) investigation of 2-Ethyl-N-[(5-nitrothiophene-2-yl)methylidene]aniline

    NASA Astrophysics Data System (ADS)

    Ceylan, Ümit; Tarı, Gonca Özdemir; Gökce, Halil; Ağar, Erbil

    2016-04-01

    Crystal structure of the title compound, 2-Ethyl-N-[(5-nitrothiophene-2-yl)methylidene]aniline, C13H12N2O2S, has been synthesized and characterized by FT-IR and UV-Vis spectrum. The compound crystallized in the monoclinic space group P 21/c with a = 11.3578 (4) Å, b = 7.4923 (2) Å, c = 14.9676 (6) Å and β = 99.589 (3)° and Z = 4 in the unit cell. The molecular geometry was also calculated using the Gaussian 03 software and structure was optimized using the HF and DFT/B3LYP methods with the 6-311++G(d,p) basis set in ground state. Using the TD-DFT method, the electronic absorption spectra of the title compound was computed in both the gas phase and ethanol solvent. The harmonic vibrational frequencies of the title compound were calculated using the same methods with the 6-311++G(d,p) basis set. The calculated results were compared with the experimental determination results of the compound. It was seen that the optimized structure was in excellent agreement with the X-ray crystal structure. The energetic behaviors of the title compound in solvent media were examined using the HF and DFT/B3LYP methods with the 6-311++G(d,p) basis set applying the polarizable continuum model (PCM). In addition, the molecular orbitals (FMOs) analysis, molecular electrostatic potential (MEP), nonlinear optical and thermodynamic properties of the title compound were performed using the same methods with the 6-311++G(d,p) basis set.

  13. Enantiomerization of Allylic Trifluoromethyl Sulfoxides Studied by HPLC Analysis and DFT Calculations.

    PubMed

    Bailly, Laetitia; Petit, Emilie; Maeno, Mayaka; Shibata, Norio; Trapp, Oliver; Cardinael, Pascal; Chataigner, Isabelle; Cahard, Dominique

    2016-02-01

    Enantiomerization of allylic trifluoromethyl sulfoxides occurs spontaneously at room temperature through the corresponding allylic trifluoromethanesulfenates via a [2,3]-sigmatropic rearrangement. Dynamic enantioselective high-performance liquid chromatography (HPLC) analysis revealed the stereodynamics of these sulfoxides ranging from chromatographic resolution to peak coalescence at temperatures between 5 and 53 °C. The rate constant of enantiomerization and activation parameters were determined and compared with Density Functional Theory (DFT) calculations.

  14. Theoretical studies of hadrons and nuclei

    SciTech Connect

    COTANCH, STEPHEN R

    2007-03-20

    This report details final research results obtained during the 9 year period from June 1, 1997 through July 15, 2006. The research project, entitled Theoretical Studies of Hadrons and Nuclei , was supported by grant DE-FG02-97ER41048 between North Carolina State University [NCSU] and the U. S. Department of Energy [DOE]. In compliance with grant requirements the Principal Investigator [PI], Professor Stephen R. Cotanch, conducted a theoretical research program investigating hadrons and nuclei and devoted to this program 50% of his time during the academic year and 100% of his time in the summer. Highlights of new, significant research results are briefly summarized in the following three sections corresponding to the respective sub-programs of this project (hadron structure, probing hadrons and hadron systems electromagnetically, and many-body studies). Recent progress is also discussed in a recent renewal/supplemental grant proposal submitted to DOE. Finally, full detailed descriptions of completed work can be found in the publications listed at the end of this report.

  15. Theoretical studies of viral capsid proteins.

    PubMed

    Phelps, D K; Speelman, B; Post, C B

    2000-04-01

    Recent results in structural biology and increases in computer power have prompted initial theoretical studies on capsids of nonenveloped icosahedral viruses. The macromolecular assembly of 60 to 180 protein copies into a protein shell results in a structure of considerable size for molecular dynamics simulations. Nonetheless, progress has been made in examining these capsid assemblies from molecular dynamics calculations and kinetic models. The goals of these studies are to understand capsid function and structural properties, including quarternary structural stability, effects of antiviral compounds that bind the capsid and the self-assembly process. The insight that can be gained from the detailed information provided by simulations is demonstrated in studies of human rhinovirus; an entropic basis for the antiviral activity of hydrophobic compounds, predicted from calculated compressibility values, has been corroborated by experimental measurements on poliovirus. PMID:10753813

  16. Theoretical studies of condensed-phase chemistry

    NASA Astrophysics Data System (ADS)

    Johnson, Michael Andrew

    1999-12-01

    The material presented here can be divided into two categories, (i)chemistry of energetic materials, or (ii)interfacial quantum chemistry. The work in Chapters 2 and 3 was performed as part of a program to simulate accidental fires and explosions. Combustion simulations rely on a great deal of chemical information such as enthalpy changes and reaction barriers for hundreds of chemical reactions, and Chapter 2 proposes a strategy for efficient calculation of these parameters. Also important in the simulation of combustion is the ability to track physical properties through phase changes. Chapter 3 emphasizes the importance of polarization in the crystal phase of DMNA; this knowledge is vital to the development of accurate molecular dynamics force fields for simulating thermophysical properties of explosive materials. Chapters 4, 5, and 6, are devoted to forefront theoretical research in the field of interfacial chemistry. As an example of chemistry at the solid-vacuum interface, the catalytic production of methyl radicals over lithium-doped magnesium oxide is considered. A new mechanism is proposed for the catalytic coupling of methane that is more consistent with available experimental data than the previously proposed Ito- Lunsford mechanism. The final two chapters describe in great detail the interactions of water with the magnesium oxide (100) surface. Applied is a novel theoretical approach that combines an embedded quantum cluster for modeling the crystal surface with a dielectric continuum representation of the solution phase. Validation of this approach is achieved by demonstrating that it can reasonably model complicated many-body interactions at solid-liquid interfaces. Attention is then focused on the challenging problem regarding the chemical reactivity of the MgO-water interface. Presented are both experimental and theoretical studies that provide new evidence for dissociative chemisorption of water molecules at the MgO(100) interface with bulk water

  17. A DFT-D study of structural and energetic properties of TiO2 modifications

    NASA Astrophysics Data System (ADS)

    Moellmann, Jonas; Ehrlich, Stephan; Tonner, Ralf; Grimme, Stefan

    2012-10-01

    The structures and relative energies of the three naturally occurring modifications of titanium dioxide (rutile, brookite and anatase) were investigated. For an accurate description, atom-pairwise dispersion-corrected density functional theory (DFT-D) was applied. The DFT-D3 scheme was extended non-empirically to improve the description of Ti atoms in bulk systems. New dispersion coefficients were derived from TDDFT calculations for electrostatically embedded TiO2 clusters. The dispersion coefficient {C}_{6}^{{TiTi}} is reduced by a factor of 18 compared to the free atom. The three TiO2 modifications were optimized in periodic plane-wave calculations with dispersion-corrected GGA (PBE, revPBE) and hybrid density functionals (PBE0, revPBE0). The calculated lattice parameters are in good agreement with experimental data, in particular the dispersion-corrected PBE0 and revPBE0 hybrid functionals. Although the observed relative stabilities could not be reproduced in all cases, dispersion corrections improve the results. For an accurate description of bulk metal oxides, London dispersion is a prominent force that should not be neglected when energies and structures are computed with DFT. Additionally, the influence of dispersion interactions on the relaxation of the TiO2(110) surface is investigated.

  18. H-aggregation of the amphiphilic dye TDPI: Photophysical, electrochemical, DFT and SAXS studies

    NASA Astrophysics Data System (ADS)

    Vicente, Juliano; Goulart, Juliana S.; Premazzi, Melissa C. A.; Sobrinho, Alan G. P.; Silva Neto, Adalberto A.; Azeredo, Marcella C. S.; Domingos, Josiel B.; Miranda, Fabio S.

    2014-04-01

    A new amphiphilic dye 2,4,5-tris(1-dodecylpyridinium-4-yl)imidazol-1-ide tetrafluoroborate (TDPI) was synthesized and characterized by 1H and 13C NMR, ESI-TOF mass spectra and elemental analysis. The photophysical behavior of TDPI was investigated by means of UV-Vis and fluorescence spectroscopy techniques. The results show a solvent-dependent blue-shift absorption and emission which were assigned to an H-aggregation. The calculated dimerization aggregation constant is 10 times bigger in dichloromethane than in acetonitrile, which is probably due to stronger ionic pair stabilization in low dielectric media. The structural characteristics of the formed aggregate were also investigated by SAXS analysis, revealing a surface fractal structure for all solvents. DFT calculations were used to investigate the photophysical properties of the monomer and the aggregate dimer. The TD-DFT calculations successfully described the electronic spectra of the monomer, but failed to simulate the dimer spectra as expected for this type of system. However, the TD-DFT of the dimer corroborates the experimental observed blue-shift tendency.

  19. Modification of titanium and titanium dioxide surfaces by ion implantation: Combined XPS and DFT study

    NASA Astrophysics Data System (ADS)

    Boukhvalov, D. W.; Korotin, D. M.; Efremov, A. V.; Kurmaev, E. Z.; Borchers, Ch.; Zhidkov, I. S.; Gunderov, D. V.; Valiev, R. Z.; Gavrilov, N. V.; Cholakh, S. O.

    2015-04-01

    The results of XPS measurements (core levels and valence bands) of P+, Ca+, P+Ca+ and Ca+P+ ion implanted (E=30 keV, D=1x1017 cm-2) commercially pure titanium (cp-Ti) and first-principles density functional theory (DFT) calculations demonstrates formation of various structural defects in titanium dioxide films formed on the surface of implanted materials. We have found that for double implantation (Ti:P+,Ca+ and Ti:Ca+,P+) the outermost surface layer formed mainly by Ca and P, respectively, i.e. the implantation sequence is very important. The DFT calculations show that under P+ and Ca+P+ ion implantation the formation energies for both cation (P-Ti) and anion (P-O) substitutions are comparable which can induce the creation of [PO4]3- and Ti-P species. For Ca+ and P+Ca+-ion implantation the calculated formation energies correspond to Ca2+-Ti4+ cation substitution. This conclusion is in agreement with XPS Ca 2p and Ti 2p core levels and valence band measurements and DFT calculations of electronic structure of related compounds. The conversion of implanted ions to Ca2+ and [PO4]3- species provides a good biocompatibility of cp-Ti for further formation of hydroxyapatite.

  20. Experimental and theoretical spectroscopic studies of anticancer drug rosmarinic acid using HF and density functional theory

    NASA Astrophysics Data System (ADS)

    Mariappan, G.; Sundaraganesan, N.; Manoharan, S.

    2012-11-01

    In this work, we reported a combined experimental and theoretical study on molecular structure, vibrational spectra and NBO analysis of anticancer drug of rosmarinic acid. The optimized molecular structure, atomic charges, vibrational frequencies, natural bond orbital analysis and ultraviolet-visible spectral interpretation of rosmarinic acid have been studied by performing HF and DFT/B3LYP/6-31G(d,p) level of theory. The FT-IR (solid and solution phase), FT-Raman (solid phase) spectra were recorded in the region 4000-400 and 3500-50 cm-1, respectively. The UV-Visible absorption spectra of the compound that dissolved in ethanol were recorded in the range of 200-800 nm. The scaled wavenumbers are compared with the experimental values. The difference between the observed and scaled wavenumber values of most of the fundamentals is very small. The formation of hydrogen bond was investigated in terms of the charge density by the NBO calculations. Based on the UV spectra and TD-DFT calculations, the electronic structure and the assignments of the absorption bands were carried out. Besides, molecular electrostatic potential (MEP), frontier molecular orbitals (FMO) analysis were investigated using theoretical calculations.

  1. Theoretical pluralism in psychoanalytic case studies

    PubMed Central

    Willemsen, Jochem; Cornelis, Shana; Geerardyn, Filip M.; Desmet, Mattias; Meganck, Reitske; Inslegers, Ruth; Cauwe, Joachim M. B. D.

    2015-01-01

    The aim of this study is to provide an overview of the scientific activity of different psychoanalytic schools of thought in terms of the content and production of case studies published on ISI Web of Knowledge. Between March 2013 and November 2013, we contacted all case study authors included in the online archive of psychoanalytic and psychodynamic case studies (www.singlecasearchive.com) to inquire about their psychoanalytic orientation during their work with the patient. The response rate for this study was 45%. It appears that the two oldest psychoanalytic schools, Object-relations psychoanalysis and Ego psychology or “Classical psychoanalysis” dominate the literature of published case studies. However, most authors stated that they feel attached to two or more psychoanalytic schools of thought. This confirms that the theoretical pluralism in psychoanalysis stretches to the field of single case studies. The single case studies of each psychoanalytic school are described separately in terms of methodology, patient, therapist, or treatment features. We conclude that published case studies features are fairly similar across different psychoanalytic schools. The results of this study are not representative of all psychoanalytic schools, as some do not publish their work in ISI ranked journals. PMID:26483725

  2. Understanding magnetic interactions in the series A2FeX5ṡH2O ( A=K , Rb; X=Cl , Br). II. Inelastic neutron scattering and DFT studies

    NASA Astrophysics Data System (ADS)

    Campo, Javier; Luzón, Javier; Palacio, Fernando; McIntyre, Garry J.; Millán, Angel; Wildes, Andrew R.

    2008-08-01

    The compounds A2FeX5ṡH2O ( A=alkali or NH4 , X=Cl , Br) form a series of easy-axis antiferromagnets with transition temperatures in the range from 6 to 23 K, temperatures considerably higher than those of other similar hydrated salts of transition-metal ions. A study combining inelastic triple axis neutron spectroscopy (TAS) neutron scattering experiments and theoretical density functional theory (DFT) ab initio calculations of the magnetic superexchange constants has been done. A general spin-wave theory for an antiferromagnetic system with several magnetic ions in the magnetic unit cell and both uniaxial and rhombic magnetic anisotropies was employed to fit the observed magnon dispersion curves. The results obtained with the two techniques (TAS and DFT) allow us to determine with accuracy the magnetic exchange constants and therefore explain the efficiency of the superexchange pathways containing hydrogen bonds in transmitting the magnetic interactions.

  3. A silver complex with tryptophan: Synthesis, structural characterization, DFT studies and antibacterial and antitumor assays in vitro

    NASA Astrophysics Data System (ADS)

    Carvalho, Marcos A.; de Paiva, Raphael E. F.; Bergamini, Fernando R. G.; Gomes, Alexandre F.; Gozzo, Fábio C.; Lustri, Wilton R.; Formiga, André L. B.; Shishido, Silvia M.; Ferreira, Carmen V.; Corbi, Pedro P.

    2013-01-01

    The synthesis, spectroscopic characterization and biological assays of a new silver(I) complex with L-tryptophan (TRP) are presented. Elemental and thermal analyses and ESI-QTOF mass spectrometric measurements of the solid compound suggest the composition AgC11H11N2O2. Infrared and solid-state NMR analyses indicate coordination of TRP to Ag(I) ion through the nitrogen of the NH2 group and also through the oxygen of carboxylate group. Theoretical (DFT) calculations permit proposing an optimized geometry for the complex. Antibacterial assays indicated that the Ag-TRP complex is effective against Staphylococcus aureus and Enterococcus faecalis (Gram-positive), and Pseudomonas aeruginosa and Escherichia coli (Gram-negative) bacterial strains. The complex was also cytotoxic against Panc-1 (human pancreatic carcinoma) and SK-Mel 103 (human melanoma) cells.

  4. Adsorption and decomposition of monopropellant molecule HAN on Pd(100) and Ir(100) surfaces: A DFT study

    NASA Astrophysics Data System (ADS)

    Banerjee, Sourav; Shetty, Sharath A.; Gowrav, M. N.; Oommen, Charlie; Bhattacharya, Atanu

    2016-11-01

    We have performed density functional theory calculations with the generalized gradient approximation to investigate the catalytic decomposition reactions of one of the most promising monopropellants, hydroxylammonium nitrate (HAN), on two catalytically active single crystal Pd(100) and Ir(100) surfaces, aiming at exploring different reaction pathways and reactivities of these two surfaces towards the catalytic decomposition of HAN. We find that the HAN molecule binds both the Pd(100) and Ir(100) surfaces molecularly in different orientations with respect to the surface. The HONO elimination is found to possess the lowest activation energy on the Pd(100) surface; whereas, NO2 elimination is predicted to show the lowest activation energy on the Ir(100) surface. Exothermicities associated with different reaction steps are also discussed. This is the first theoretical report on the catalytic decomposition reactions of the HAN molecule on the single crystal Pd(100) and the Ir(100) surfaces using the periodic DFT calculations.

  5. FT-IR and FT-Raman spectra, MEP and HOMO-LUMO of 2,5-dichlorobenzonitrile: DFT study.

    PubMed

    Alcolea Palafox, M; Bhat, Daisy; Goyal, Yasha; Ahmad, Shabbir; Hubert Joe, I; Rastogi, V K

    2015-02-01

    The experimental FT-IR and FT-Raman spectra of 2,5-dichlorobenzonitrile molecule were recorded at room temperature, and the results compared with quantum chemical theoretical values using MP2 and DFT methods. Molecular geometry, vibrational wavenumbers and thermodynamic parameters were calculated. With the help of specific scaling procedures for the computed wavenumbers, the experimentally observed FTIR and FT-Raman bands were analyzed and assigned to different normal modes of the molecule. Most of the modes have wavenumbers in the expected range and the error obtained was in general very low. Several general conclusions were deduced. The NBO analysis has been done and Molecular Electrostatic Potential (MEP) has been plotted.

  6. Using Defects in Materials to Store Energy: a Theoretical Study

    NASA Astrophysics Data System (ADS)

    Lu, I.-Te; Bernardi, Marco

    We study the energy stored by defects in materials using density functional theory (DFT) calculations. Leveraging experimental data to estimate the energy density of defects, expressed as the defect formation energy per unit volume (units of MJ/L) or weight (units of MJ/kg), we identify candidates for high energy density storage, including tungsten, diamond, graphite, silicon, and graphene. DFT calculations are applied to these materials to study the formation energy of vacancies, interstitials, and Frenkel pairs. Our results indicate that the energy density stored by defects in these materials, with experimentally accessible non-equilibrium defect concentrations, can be higher than that of common energy storage technologies such as lithium batteries and supercapacitors. We discuss storage of solar energy and electrical energy (through ion bombardment) using defects.

  7. Comparative studies of the spectroscopy of CuCl2: DFT versus standard ab initio approaches.

    PubMed

    Ramírez-Solís, A; Poteau, R; Vela, A; Daudey, J P

    2005-04-22

    The X2Pi g-2Sigma g+, X2Pi g-2Delta g, X2Pi g-2Sigma u+, X2Pi g-2Pi u transitions on CuCl2 have been studied using several exchange-correlation functionals from the various types of density functional theory (DFT) approaches like local density approximation (LDA), generalized gradient approximation (GGA), hybrid and meta-GGA. The results are compared with the experience and with those coming from the most sophisticated nondynamic and dynamic electronic correlation treatments using the same relativistic effective core potentials and especially developed basis sets to study the electronic structure of the five lowest states and the corresponding vertical and adiabatic transition energies. The calculated transition energies for three of the hybrid functionals (B3LYP, B97-2, and PBE0) are in very good agreement with the benchmark ab initio results and experimental figures. All of the other functionals largely overestimate the X2Pi g-2Sigma g+ and X2Pi g-2Delta g transition energies, many of them even placing the 2Delta g ligand field state above the charge transfer 2Pi u and 2Sigma u+ states. The relative weight of the Hartree-Fock exchange in the definition of the functional used appears to play a key role in the accurate description of the LambdaSSigma density defined by the orientation of the 3d hole (sigma, pi, or delta) on Cu in the field of both chlorine atoms, but no simple connection of this weight with the quality of the spectra has been found. Mulliken charges and spin densities are carefully analyzed; a possible link between the extent of spin density on the metal for the X2Pi g state and the performance of the various functionals was observed, suggesting that those that lead to the largest values (close to 0.65) are the ones that best reproduce these four transitions. Most functionals lead to a remarkably low ionicity for the three ligand field states even for the best performing functionals, compared to the complete active space (SCF) (21, 14) ab initio

  8. Comparative studies of the spectroscopy of CuCl2: DFT versus standard ab initio approaches

    NASA Astrophysics Data System (ADS)

    Ramírez-Solís, A.; Poteau, R.; Vela, A.; Daudey, J. P.

    2005-04-01

    The XΠg2-Σg +2, XΠg2-Δg2, XΠg2-Σu +2, XΠg2-Πu2 transitions on CuCl2 have been studied using several exchange-correlation functionals from the various types of density functional theory (DFT) approaches like local density approximation (LDA), generalized gradient approximation (GGA), hybrid and meta-GGA. The results are compared with the experience and with those coming from the most sophisticated nondynamic and dynamic electronic correlation treatments using the same relativistic effective core potentials and especially developed basis sets to study the electronic structure of the five lowest states and the corresponding vertical and adiabatic transition energies. The calculated transition energies for three of the hybrid functionals (B3LYP, B97-2, and PBE0) are in very good agreement with the benchmark ab initio results and experimental figures. All of the other functionals largely overestimate the XΠg2-Σg +2 and XΠg2-Δg2 transition energies, many of them even placing the Δg2 ligand field state above the charge transfer Πu2 and Σu +2 states. The relative weight of the Hartree-Fock exchange in the definition of the functional used appears to play a key role in the accurate description of the ΛSΣ density defined by the orientation of the 3d hole (σ, π, or δ) on Cu in the field of both chlorine atoms, but no simple connection of this weight with the quality of the spectra has been found. Mulliken charges and spin densities are carefully analyzed; a possible link between the extent of spin density on the metal for the XΠg2 state and the performance of the various functionals was observed, suggesting that those that lead to the largest values (close to 0.65) are the ones that best reproduce these four transitions. Most functionals lead to a remarkably low ionicity for the three ligand field states even for the best performing functionals, compared to the complete active space (SCF) (21, 14) ab initio values. These findings show that not only large

  9. Theoretical studies on flapped delta wings

    NASA Technical Reports Server (NTRS)

    Oh, S.; Tavella, D.; Roberts, L.

    1988-01-01

    The effects of leading edge flaps on the aerodynamic characteristics of a low aspect-ratio delta wing are studied theoretically. As an extension of the classical crossflow plane analysis and in order to include separated shear layers, an analogy between three dimensional steady conical and two dimensional unsteady self-similar flows is explored. This analogy provides a simple steady-unsteady relationship. The criteria for the validity of the steady-unsteady analogy are also examined. Two different theoretical techniques are used to represent the separated shear layers based on the steady-unsteady analogy, neglecting the trailing edge effect. In the first approach, each vortex system is represented by a pair of concentrated vortices connected to the separation points by straight feeding sheets. In the second approach, the vortex cloud method is adopted for simulating the flow field in the crossflow plane. The separated shear layers are replaced with a cloud of discrete vortices and the boundary element method is employed to represent the wing trace by a vorticity distribution. A simple merging scheme is used to model the core region of the vortical flow as a single vortex by imposing a restriction on the shear layer rotation angle. The results are compared with experiments and with results from 3-D panel calculations.

  10. Theoretical Study on Standing Wave Thermoacoustic Engine

    NASA Astrophysics Data System (ADS)

    Kalra, S.; Desai, K. P.; Naik, H. B.; Atrey, M. D.

    Applications of thermoacoustic engines are not limited to driving pulse tube cryocoolers. The performance of a thermoacoustic engine is governed by various design parameters like type of resonator, stack geometry, frequency, type of working gas etc. and various operating parameters like heat input, charging pressure etc. It is very important to arrive at an optimum configuration of the engine for which a theoretical model is required. In the present work, a theoretical analysis, based on linear acoustic theory of a standing wave type half wavelength thermoacoustic engine is carried out using DeltaEC software. The system dimensions like length of resonator, stack, hot and cold heat exchangers are fixed with a helium-argon mixture as the working gas and a parallel plate type stack. Later on, two plate spacings, corresponding to helium-argon mixture and nitrogen gas, are used for carrying out analysis with helium, argon, nitrogen, carbon dioxide and helium-argon mixture as working gases of the system. The effect of charging pressure on the performance of the system is studied in terms of resonating frequency, onset temperature, pressure amplitude, acoustic power and efficiency. The conclusions derived from the analysis are reported in the paper.

  11. DFT calculations and experimental FT-IR, FT-Raman, NMR, UV-Vis spectral studies of 3-fluorophenylboronic acid.

    PubMed

    Karabacak, M; Kose, E; Sas, E B; Kurt, M; Asiri, A M; Atac, A

    2015-02-01

    The spectroscopic (FT-IR, FT-Raman, (1)H and (13)C NMR, UV-Vis), structural, electronic and thermodynamical properties of 3-fluorophenylboronic acid (C6H4FB(OH)2), 3FPBA) were submitted by using both experimental techniques and theoretical methods (quantum chemical calculations) in this work. The experimental infrared and Raman spectra were obtained in the region 4000-400 cm(-1) and 3500-10 cm(-1), respectively. The equilibrium geometry and vibrational spectra were calculated by using DFT (B3LYP) with 6-311++G(d,p) basis set. The vibrational wavenumbers were also corrected with scale factor to take better results for the calculated data. The total energy distributions (TED) of the vibrational modes were performed for the assignments of the title molecule by using scaled quantum mechanics (SQM) method. The NMR chemical shifts ((1)H and (13)C) were recorded in DMSO solution. The (1)H and (13)C NMR spectra were computed by using the gauge-invariant atomic orbital (GIAO) method, showing a good agreement with the experimental ones. The last one UV-Vis absorption spectra were analyzed in two solvents (ethanol and water), saved in the range of 200-400 nm. In addition these, HOMO and LUMO energies, the excitation energies, density of states (DOS) diagrams, thermodynamical properties and molecular electrostatic potential surface (MEPs) were presented. Nonlinear optical (NLO) properties and thermodynamic features were performed. The experimental results are combined with the theoretical calculations using DFT calculations to fortification of the paper. At the end of this work, the results were proved our paper had been indispensable for the literature backing. PMID:25448934

  12. DFT calculations and experimental FT-IR, FT-Raman, NMR, UV-Vis spectral studies of 3-fluorophenylboronic acid

    NASA Astrophysics Data System (ADS)

    Karabacak, M.; Kose, E.; Sas, E. B.; Kurt, M.; Asiri, A. M.; Atac, A.

    2015-02-01

    The spectroscopic (FT-IR, FT-Raman, 1H and 13C NMR, UV-Vis), structural, electronic and thermodynamical properties of 3-fluorophenylboronic acid (C6H4FB(OH)2), 3FPBA) were submitted by using both experimental techniques and theoretical methods (quantum chemical calculations) in this work. The experimental infrared and Raman spectra were obtained in the region 4000-400 cm-1 and 3500-10 cm-1, respectively. The equilibrium geometry and vibrational spectra were calculated by using DFT (B3LYP) with 6-311++G(d,p) basis set. The vibrational wavenumbers were also corrected with scale factor to take better results for the calculated data. The total energy distributions (TED) of the vibrational modes were performed for the assignments of the title molecule by using scaled quantum mechanics (SQM) method. The NMR chemical shifts (1H and 13C) were recorded in DMSO solution. The 1H and 13C NMR spectra were computed by using the gauge-invariant atomic orbital (GIAO) method, showing a good agreement with the experimental ones. The last one UV-Vis absorption spectra were analyzed in two solvents (ethanol and water), saved in the range of 200-400 nm. In addition these, HOMO and LUMO energies, the excitation energies, density of states (DOS) diagrams, thermodynamical properties and molecular electrostatic potential surface (MEPs) were presented. Nonlinear optical (NLO) properties and thermodynamic features were performed. The experimental results are combined with the theoretical calculations using DFT calculations to fortification of the paper. At the end of this work, the results were proved our paper had been indispensable for the literature backing.

  13. Optical Absorption Spectra and Electronic Properties of Symmetric and Asymmetric Squaraine Dyes for Use in DSSC Solar Cells: DFT and TD-DFT Studies

    PubMed Central

    El-Shishtawy, Reda M.; Elroby, Shaaban A.; Asiri, Abdullah M.; Müllen, Klaus

    2016-01-01

    The electronic absorption spectra, ground-state geometries and electronic structures of symmetric and asymmetric squaraine dyes (SQD1–SQD4) were investigated using density functional theory (DFT) and time-dependent (TD-DFT) density functional theory at the B3LYP/6-311++G** level. The calculated ground-state geometries reveal pronounced conjugation in these dyes. Long-range corrected time dependent density functionals Perdew, Burke and Ernzerhof (PBE, PBE1PBE (PBE0)), and the exchange functional of Tao, Perdew, Staroverov, and Scuseria (TPSSh) with 6-311++G** basis set were employed to examine optical absorption properties. In an extensive comparison between the optical data and DFT benchmark calculations, the BEP functional with 6-311++G** basis set was found to be the most appropriate in describing the electronic absorption spectra. The calculated energy values of lowest unoccupied molecular orbitals (LUMO) were 3.41, 3.19, 3.38 and 3.23 eV for SQD1, SQD2, SQD3, and SQD4, respectively. These values lie above the LUMO energy (−4.26 eV) of the conduction band of TiO2 nanoparticles indicating possible electron injection from the excited dyes to the conduction band of the TiO2 in dye-sensitized solar cells (DSSCs). Also, aromaticity computation for these dyes are in good agreement with the data obtained optically and geometrically with SQD4 as the highest aromatic structure. Based on the optimized molecular geometries, relative positions of the frontier orbitals, and the absorption maxima, we propose that these dyes are suitable components of photovoltaic DSSC devices. PMID:27043556

  14. TD-DFT study of the light-induced spin crossover of Fe(III) complexes.

    PubMed

    Saureu, Sergi; de Graaf, Coen

    2016-01-14

    Two light-induced spin-crossover Fe(III) compounds have been studied with time-dependent density functional theory (TD-DFT) to investigate the deactivation mechanism and the role of the ligand-field states as intermediates in this process. The B3LYP* functional has previously shown its ability to accurately describe (light-induced) spin-crossover in Fe(II) complexes. Here, we establish its performance for Fe(III) systems using [Fe(qsal)2](+) (Hqsal = 2-[(8-quinolinylimino)methyl]phenol) and [Fe(pap)2](+) (Hpap = 2-(2-pyridylmethyleneamino)phenol) as test cases comparing the B3LYP* results to experimental information and to multiconfigurational wave function results. In addition to rather accurate high spin (HS) and low spin (LS) state geometries, B3LYP* also predicts ligand-to-metal charge transfer (LMCT) states with large oscillator strength in the energy range where the UV-VIS spectrum shows an intense absorption band, whereas optically allowed π-π* excitations on the ligands were calculated at higher energy. Subsequently, we have generated a two-dimensional potential energy surface of the HS and LS states varying the Fe-N and Fe-O distances. LMCT and metal centered (MC) excited states were followed along the approximate minimal energy path that connects the minima of the HS and LS on this surface. The (2)LMCT state has a minimum in the same region as the initial LS state, where we also observe a crossing with the intermediate spin (IS) state. Upon the expansion of the coordination sphere of the Fe(III) ion, the IS state crosses with the HS state and further expansion of the coordination sphere leads to the excited spin state trapping as observed in experiment. The calculation of the intersystem crossing rates reveals that the deactivation from (2)LMCT → IS → HS competes with the (2)LMCT → IS → LS pathway, in line with the low efficiency encountered in experiments. PMID:26660866

  15. A DFT study of the ionization and electron attachment of 2-azido pyridine

    NASA Astrophysics Data System (ADS)

    Elshakre, Mohamed

    2015-03-01

    A DFT study using B3LYP/6-31G(d,p) level of theory is pursued to investigate the energy and geometry changes of 2-azido pyridine isomers in the S0, D0+, and D0-. In S0, cis-2 azidopyridine is the most stable, followed by cyclic tetrazole and trans isomer is the least stable. In D0+, the cis isomer is the most stable, followed by trans isomer, and tetrazole isomer is the least stable. In the D0- state, the trans form is the most stable, followed by the cis and the tetrazolo form is the least stable. Single point vertical excitation energy calculations of the cis form gave four excited states at 266.4, 239.4, 199.4, and 196.1 nm, all having π-π∗ character. For trans isomer, five excited states at, 256.7, 250.3, 229.7, 199.0, 197.0 nm all resulting from π-π∗ transitions. For the tetrazole isomer, seven excited states at 269.3, 242.7, 198.0, 187.2, 183.9, 182.1, 178.7 nm all resulting from π-π∗ transitions. The geometries of the 3 isomers show noticeable changes in bond lengths, bond angles and dihedral angles, upon ionization and electron attachment. The ionization results in a remarkable variation of the NBO atomic charges as a result of ionization and electron attachment. where electron density of HOMO of the D0+ state is found to be much lower than that of the HOMO of the S0 in the case of ionization. The dipole moment calculations show that tetrazole isomer has the largest polarization in the S0 state, followed by cis isomer and trans isomer is the least polarized. The same pattern is found in the D0+ state. In the D0- state, trans isomer is the highest polarized, followed by the cis, and tetrazole isomer is the least polarized. The rotational constants calculations of cis- isomer show that the cation is elongated along the long in-plane axis and compressed along the two short out-of-plane axes while the anion is compressed along the long in-plane axis, and elongated along the two short out-of plane axes. The cation and anion of trans isomer show

  16. TiO2 anatase's bulk and (001) surface, structural and electronic properties: A DFT study on the importance of Hubbard and van der Waals contributions

    NASA Astrophysics Data System (ADS)

    Araujo-Lopez, Eduard; Varilla, Luis Alcala; Seriani, Nicola; Montoya, Javier A.

    2016-11-01

    Theoretical ab initio studies done so far on the structural properties of the titanium dioxide anatase (001) surface, have not reported simultaneously the complete set of cell and interatomic parameters for this system or its bulk. Here we present a complete report of these quantities within a spin polarized Density Functional Theory calculation, including also the Hubbard term and the van der Waals dispersion contribution. We show that within this approach it is possible to find a description of TiO2 anatase using DFT, that correlates better with experimental results than most theoretical studies reported previously. This good level of agreement has an advantage with respect to other very accurate studies which have performed computationally expensive calculations involving hybrid functionals, in that our method tends to be faster while also including the van der Waals dispersion contributions in addition to the treatment of correlations. The observed high-quality description of a system like TiO2 within this approach is important and encouraging; specially because it treats properly a d-shell element that is possibly going to have, for many applications of interest, long-range interaction with molecules, e.g. in studies of photocatalysis, where one needs all the relevant physics of the system to be included. We support this claim with an example of the effects that long-range interactions have on a CO2 molecule at the (001) surface.

  17. Theoretical studies of 2-quinolinol: Geometries, vibrational frequencies, isomerization, tautomerism, and excited states

    NASA Astrophysics Data System (ADS)

    Pan, Yi; Lau, Kai-Chung; Al-Mogren, Muneerah Mogren; Mahjoub, Ahmed; Hochlaf, Majdi

    2014-10-01

    We treat theoretically 2-quinolinol(lactam), an analog of carbostyril and DNA bases. We characterized the ground state structure of 2-quinolinol and its isomer(lactim) using density functional theory(DFT). The reaction profile and energetics for lactam-lactim tautomerization and cis-lactim to trans-lactim isomerization predicted with explicitly correlated methods. We explored the pattern of the lowest singlet and triplet manifolds of states and electronic S1 ← S0 transitions using multiconfigurational methodologies. The theoretical results are compared with available experimental data and used to interpret the on-going photoelectron study of 2-quinolinol. Our analysis should help to understand the effect of tautomerism and aromaticity on the DNA bases.

  18. Theoretical and experimental studies of 3β-acetoxy-5α-cholestan-6-one oxime

    NASA Astrophysics Data System (ADS)

    Khan, Azhar U.; Avecillia, Fernando; Malik, Nazia; Khan, Md. Shahzad; Khan, Mohd Shahid; Mushtaque, Md.

    2016-10-01

    Steroidal oxime (3β-acetoxy-5α-cholestan- 6-one oxime) has been synthesized using microwave-induced reaction in 3.5 min using saturated steroidal ketone and aqueous hydroxylamine hydrochloride in ethanol. The structure of the compound was elucidated by UV, IR, 1H NMR and X-ray single crystal structure. The computational quantum chemical studies like, IR, UV analysis were performed by density functional theory (DFT) at Becke-3-Lee-Yang-Parr(B3LYP) exchange-correlation functional in combination with 6-31++G(d,p) basis sets. The harmonic vibrational frequencies, the optimized geometric parameters have been interpreted and compared with experimental values. Theoretical wavelength at 214.88 cm-1 correspond to the experimental value 214.0 cm-1. The nature of this transition is n → π*. The theoretical results are in good agreement with experiment results.

  19. Theoretical study of pyridoxine (vitamin B6) photolysis.

    PubMed

    Wu, Min; Xu, Qi; Strid, Ake; Martell, Jaime M; Eriksson, Leif A

    2011-11-24

    Two different reaction types for the photolysis of pyridoxine-aromatic ring-opening and photodissociation-have been studied in the Density Functional Theory (DFT) framework. Our results show that neither photolytic ring-opening, dehydroxymethylation, demethylation nor dehydroxylation from the aromatic ring can be induced spontaneously in UV-irradiated pyridoxine, due to the high barriers along the reaction coordinates in the excited states. However, the simultaneous dehydroxylation of the C4-bound hydroxymethyl group and dehydrogenation of the ring bound hydroxyl substituent, selectively generating ortho-quinone methide and water, does occur after UV exposure. The findings correlate very well with available experimental data. The geometries of pyridoxine, its various transition states and products are optimized in the ground and first excited states in vacuum within the TD-DFT formalism. PMID:21995706

  20. Theoretical Study of Fe(CO)n-

    NASA Technical Reports Server (NTRS)

    Ricca, Alessandra; Baushlicher, Charles W., Jr.

    1995-01-01

    The structures and CO binding energies are computed for Fe(CO)n- using a hybrid density functional theory (DFT) approach. The structures and ground states can be explained in terms of maximizing the Fe to CO 2pi* donation and minimizing Fe-CO 5 sigma repulsion. The trends in the CO binding energies for Fe(CO)n- and the differences between the trends for Fe(CO)n- and Fe(CO)n are also explained. For Fe(CO)n-, the second, third, and fourth CO bonding energies are in good agreement with experiment, while the first is too small. The first CO binding is also too small using the coupled cluster singles and doubles approach including a perturbation estimate of the connected triple excitations.

  1. NMR, DFT and luminescence studies of the complexation of Zn(II) with 8-hydroxyquinoline-5-sulfonate.

    PubMed

    Luísa Ramos, M; Justino, Licínia L G; Branco, Adriana; Duarte, Cláudia M G; Abreu, Paulo E; Fonseca, Sofia M; Burrows, Hugh D

    2011-11-28

    Multinuclear ((1)H, (13)C) magnetic resonance spectroscopy, DFT calculations and luminescence techniques have been used to study 8-hydroxyquinoline-5-sulfonate (8-HQS) and its complexes with Zn(ii), in aqueous solution. The study combines the high sensitivity of luminescence techniques, the selectivity of multinuclear NMR spectroscopy with the structural details accessible through DFT calculations, and aims to obtain a detailed understanding of the complexation between the Zn(2+) ion and 8-HQS. In addition to a complete assignment of the (1)H and (13)C NMR signals of 8-HQS, a full speciation study has been performed. Over the concentration region studied, Zn(2+) metal ion forms only one significant complex species with 8-HQS in aqueous solution in the pH range 6-8. Job's method shows that this species has a 1:2 (metal:ligand) stoichiometry. The geometry around the metal centre, according to structural optimization using DFT calculations, is suggested to be square bipyramidal, with two coordinated water molecules mutually trans, and the remaining positions occupied by the donor groups of the two coordinated 8-HQS ligands. On binding to Zn(ii), 8-HQS shows a marked fluorescence compared with the weakly-luminescent free ligand. In addition, as previously noted, there are marked changes in the absorption spectra, which support the use of 8-HQS as a sensitive fluorescent sensor to detect Zn(2+) metal ion in surface waters, biological fluids, etc. Based on results of the structural studies, suggestions are made of ways for enhancing fluorescence sensitivity.

  2. A DFT study on the Cu (1 1 1) surface for ethyl acetate synthesis from ethanol dehydrogenation

    NASA Astrophysics Data System (ADS)

    Li, Ruzhen; Zhang, Minhua; Yu, Yingzhe

    2012-07-01

    Copper-based catalysts have shown excellent catalytic performances. Despite extensive studies in the field, the microscopic mechanism of ethanol dehydrogenation to ethyl acetate (EA) on Cu-based catalysts remains controversial. Aiming to provide insight into the catalytic roles of Cu, density functional theory (DFT) calculations have been performed to study the elementary reactions involved in ethanol dehydrogenation to EA on Cu surfaces. In this work, the adsorption properties of ethanol, ethoxy, acetaldehyde, acetyl and EA on the Cu (1 1 1) catalyst surface were investigated. Based on two pathways, many transition states involved are located. The results show that the route proposed by Colley is more likely to happen.

  3. A DFT/TD DFT study of the structure and spectroscopic properties of 5-methyl-2-(8-quinolinyl)benzoxazole and its complexes with Zn(II) ion.

    PubMed

    Guzow, Katarzyna; Milewska, Magda; Czaplewski, Cezary; Wiczk, Wiesław

    2010-02-01

    The structure and spectroscopic properties of 5-methyl-2-(8-quinolinyl)benzoxazole and its complexes with Zn(II) ion were studied using a DFT and TD DFT methods with def2-TZVP basis set. It was shown that the type of functional used (B3-LYP or pbe0) implemented in TURBOMOLE package does not have essential influence on the geometry (small differences in bond length, valence and dihedral angles) of studied compounds in both ground and excited states. However, significant differences were obtained for the position of vertical absorption and emission transition but not for the oscillator strength of transition. Application of pbe0 functional seems to reproduce better the experimental spectrum.

  4. Investigating Superoxide Transfer through a μ-1,2-O2 Bridge between Nonheme Ni(III)-Peroxo and Mn(II) Species by DFT Methods to Bridge Theoretical and Experimental Views.

    PubMed

    Cho, Kyung-Bin; Cho, Jaeheung; Shaik, Sason; Nam, Wonwoo

    2014-07-17

    Previously, a fast unprecedented O2(•-) transfer reaction has been observed experimentally when adding a Mn(II) complex into a solution containing a Ni(III)-peroxo complex. Due to the fast reaction rate, no intermediates were observed. We have investigated this reaction with density functional theory (DFT) and show that DFT is unusually problematic in reproducing the correct spin state for the investigated Ni(III)-peroxo complex, something which calls for examination of all previous Ni-dioxygen studies. Surprisingly, the BP86 functional is shown to yield energies more in agreement with known experiments than B3LYP. The calculations reveal for the first time an intermediate structure in a complete O2(•-) transfer reaction, shown here to be a short-lived bridging Ni-(μ-1,2-O2)-Mn structure. PMID:26277812

  5. NMR, DFT and luminescence studies of the complexation of Al(III) with 8-hydroxyquinoline-5-sulfonate.

    PubMed

    Ramos, M Luísa; Justino, Licínia L G; Salvador, Andreia I N; de Sousa, Andreia R E; Abreu, Paulo E; Fonseca, Sofia M; Burrows, Hugh D

    2012-10-28

    Multinuclear ((1)H, (13)C and (27)Al) magnetic resonance spectroscopy (1D and 2D), DFT calculations and fluorescence have been used to study the complexation of 8-hydroxyquinoline-5-sulfonate (8-HQS) with Al(III). The study combines the high sensitivity of luminescence techniques, the selectivity of multinuclear NMR spectroscopy with the structural details accessible through DFT calculations, and aims to provide a detailed understanding of the complexation between the Al(3+) ion and 8-HQS. A full speciation study has been performed and over the concentration region studied, the Al(3+) ion forms complexes with 8-HQS in an aqueous solution in the pH range 2-6. At higher pH, the extensive hydrolysis of the metal limits complexation. Using Job's method, three complexes were detected, with 1 : 1, 1 : 2 and 1 : 3 (metal : ligand) stoichiometries. These results are in agreement with those previously reported using potentiometric and electrochemical techniques. The geometries of the complexes are proposed based on the combination of NMR results with optimized DFT calculations. All the complexes in aqueous solutions at 25 °C are mononuclear species, and have an approximately octahedral geometry with the metal coordinated to one molecule of 8-HQS and four molecules of water (1 : 1 complex), two molecules of 8-HQS and two molecules of water mutually cis (1 : 2 complex), and to three molecules of 8-HQS in non-symmetrical arrangement (mer-isomer), for the 1 : 3 (metal : ligand) complex. On binding to Al(III), 8-HQS shows a more marked fluorescence than the weakly fluorescent free ligand. In addition, as previously noted, there are marked changes in the absorption spectra, which support the use of 8-HQS as a sensitive optical sensor to detect Al(3+) metal ions in surface waters and biological fluids. These complexes also show potential for applications in organic light emitting diodes (OLEDs).

  6. DFT study of electronic transfer properties of carboxyl and nitro substituted benzene

    NASA Astrophysics Data System (ADS)

    M, Megala.; Rajkumar, Beulah J. M.

    2015-06-01

    The electronic and optical transfer properties of Benzene, Benzoic Acid (BA), Nitrobenzene (NB) and Para Nitro Benzoic Acid (PNBA) at ground and first excited state has been investigated by the Density functional theory (DFT)and Time Dependent Density Functional Theory (TDDFT) using SVWN functional/3-21G basis set respectively. Possible intra-molecular charge transfer and n to π* transitions in the ground and the first excitation states have been predicted by the molecular orbitals and the Natural Bond Orbital (NBO) analysis. The simulated absorption spectra have been generated and the result compared with existing experimental results.

  7. High-pressure behavior of solid nitrobenzene: Combined Raman spectroscopy and DFT-D calculations study

    NASA Astrophysics Data System (ADS)

    Wang, Wen-Peng; Liu, Fu-Sheng; Liu, Qi-Jun; Zhang, Lin-Ji; Wang, Yi-Gao; Liu, Zheng-Tang

    2016-09-01

    Nitrobenzene (NB), a simplest structure of the aromatic nitro compounds, was investigated as a model for understanding structural properties in nitro derivatives of benzene and anilines. Using the Raman spectroscopic technique, the vibrational modes of solid NB were examined under hydrostatic compression up to 10 GPa. The Raman spectra indicated that a subtle phase transition occurred around 5 GPa. Also, the dispersion corrected density functional theory (DFT-D) calculations were performed to provide further insight into pressure effects on the molecular geometry. The calculated data suggested that NB molecules were distorted, and molecular conformation was readjusted when the phase transition with vibrational changes took place under high-pressure.

  8. DFT study of electronic transfer properties of carboxyl and nitro substituted benzene

    SciTech Connect

    Megala, M.; Rajkumar, Beulah J. M.

    2015-06-24

    The electronic and optical transfer properties of Benzene, Benzoic Acid (BA), Nitrobenzene (NB) and Para Nitro Benzoic Acid (PNBA) at ground and first excited state has been investigated by the Density functional theory (DFT)and Time Dependent Density Functional Theory (TDDFT) using SVWN functional/3-21G basis set respectively. Possible intra-molecular charge transfer and n to π* transitions in the ground and the first excitation states have been predicted by the molecular orbitals and the Natural Bond Orbital (NBO) analysis. The simulated absorption spectra have been generated and the result compared with existing experimental results.

  9. Acylation and deacylation mechanism of Helicobacter pylori AmiF formamidase: A computational DFT study

    NASA Astrophysics Data System (ADS)

    He, Rongxing; Yang, Qinlei; Li, Ming

    2014-04-01

    The acylation and deacylation mechanisms of Helicobacter pylori AmiF formamidase were investigated using DFT method. In the constructed active site, residues Glu60, Glu141 and His167 were taken into account besides Lys133 and Cys166. Calculations provided insight on the details of mechanism and explained crucial roles played by Glu60, Glu141 and His167. For acetylation, we proposed a new stepwise mechanism in which the thiol group first attacks the carbon atom of formamide and produces tetrahedral intermediate. In deacylation, Glu60 activates a water molecule to perform nucleophilic attack and then forms an intermediate, which is different from the usually suggested mechanism.

  10. DFT studies on the vibrational and electronic spectra of acetylsalicylic acid

    NASA Astrophysics Data System (ADS)

    Ye, Yunfeng; Tang, Guodong; Han, Yonghong; Culnane, Lance F.; Zhao, Jianyin; Zhang, Yu

    2016-05-01

    The following is a theoretical and experimental study on the vibrational and electronic properties of acetylsalicylic acid (ASA). Vibrational information was obtained by FT-IR and Raman spectroscopy which agree well with harmonic vibrational frequency calculations. The calculations were carried out using density functional theory B3LYP methods with 6-311G** and LANL2DZ basis sets. The vibrational assignments were calculated by Gaussview. Absorption UV-Vis experiments of ASA reveal three maximum peaks at 203, 224 and 277 nm, which are in agreement with calculated electronic transitions using TD-B3LYP/6-311G**.

  11. A new series of Schiff bases derived from sulfa drugs and indole-3-carboxaldehyde: Synthesis, characterization, spectral and DFT computational studies

    NASA Astrophysics Data System (ADS)

    Ebrahimi, H.; Hadi, J. S.; Al-Ansari, H. S.

    2013-05-01

    A new series of Schiff bases were synthesized for the first time by the condensation of indole-3-carboxaldehyde with various sulfa drugs including sulfanilamide, sulfapyridine, sulfadiazine, sulfamerazine, sulfamethoxazole, sulfamethoxypyridazine and sulfacetamide sodium in ethanol (1:1). The structure of Schiff bases were experimentally characterized by using IR, 1H NMR, 13C NMR and mass spectroscopic methods. The structural and electronic properties of the studied molecules were investigated theoretically by performing density functional theory (DFT) to access reliable results to the experimental values. The molecular geometry, the highest occupied molecular orbital (HOMO), the lowest unoccupied molecular orbital (LUMO) and Mulliken atomic charges of the studied molecules have been calculated at the B3LYP method and standard 6-31 + G(d,p) basis set starting from optimized geometry. The theoretical 13C chemical shift results were also calculated using the gauge independent atomic orbital (GIAO) approach and their respective linear correlations were obtained. The comparison of the results indicates that B3LYP/6-31 + G(d,p) yields good agreement with the observed chemical shifts.

  12. The effect of Cu(2+) chelation on the direct photolysis of oxytetracycline: A study assisted by spectroscopy analysis and DFT calculation.

    PubMed

    Jin, Xin; Qiu, Shanshan; Wu, Ke; Jia, Mingyun; Wang, Fang; Gu, Chenggang; Zhang, Aiqian; Jiang, Xin

    2016-07-01

    The extensive usage of OTC and Cu(2+) in livestock and poultry industry caused high residues in natural environment. Co-contamination of OTC and Cu(2+) was a considerable environmental problem in surface waters. In this study, Cu(2+) mediated direct photolysis of OTC was studied. Cu(2+) chelating with OTC was found to greatly inhibit OTC photodegradation. To reveal the chelation mechanism of OTC-Cu complexes, multiple methods including UV-Vis absorption spectra, Infrared (IR) spectra, mass spectroscopy, and density functional theoretical (DFT) modeling were performed. Four OTC-Cu complexes were proposed. Cu(2+) preferably bond to O11O12 site with the binding constants logK = 8.19 and 7.86 for CuHL+ and CuL±, respectively. The second chelating site was suggested to be O2O3 with the binding constants of logK = 4.41 and 4.62 for Cu2HL3+ and Cu2L2+, respectively. The suppressed quantum yield of OTC by Cu2+ chelation was accused for their intra-/inter-molecular electron transfer, by which the energy in activated states was distributed. The occurrence of electron transfer between BCD ring and A ring also from BCD ring to Cu was evidenced by the TD-DFT result only for the OTC-Cu complexes. Besides, the cyclic voltammetry measurement also suggested one OTC-Cu(II)/OTC-Cu(I) redox couple. These results suggested that the persistence of OTC in environmental surface waters will probably be underestimated for neglecting the chelating effect of Cu2+. The photolysis quantum yield of OTC-Cu complexes, as well as the specific molar absorption constants, the equilibrium binding constants of Cu2+ with OTC could contribute to more accurate kinetic models of OTC.

  13. Comparative vibrational spectroscopic studies, HOMO-LUMO, NBO analyses and thermodynamic functions of p-cresol and 2-methyl-p-cresol based on DFT calculations.

    PubMed

    Balachandran, V; Murugan, M; Nataraj, A; Karnan, M; Ilango, G

    2014-11-11

    In the present study structural properties of p-cresol, and 2-methoxy-p-cresol have been studied by using B3LYP/cc-pvdz and B3PW91/cc-pvdz of Density Functional Theory (DFT) utilizing Becke three exchange functional and Lee Yang Paar correlation functional. The Fourier transform infrared and Fourier transform Raman spectra of title molecules were recorded (solid phase). Optimized geometry, harmonic vibrational frequencies and various thermodynamic parameters of the title compounds were calculated with B3LYP/cc-pvdz, and B3PW91/cc-pvdz basis sets. Non-linear optical (NLO) behavior of the p-cresol and 2-methoxy-p-cresol were investigated by determining of electric dipole moment, polarizability α, and hyperpolarizability β using the above mentioned basis sets. The molecular properties such as ionization potential, electronegativity, chemical potential, electrophilicity have been deduced from HOMO-LUMO analysis employing the same basis sets. A detailed interpretation of the infrared and Raman spectra of title molecules were reported. UV spectrum was measured in different solvent. The energy and oscillator strength are calculated by Time Dependant Density Functional Theory (TD-DFT) results. The calculated HOMO and LUMO energies also confirm that charge transfer occurs within the molecule. The complete assignments were performed on the basis of the potential energy distribution (PED) of vibrational modes, calculated with scaled quantum mechanics (SQM) method. Finally the theoretical FT-IR, FT-Raman, and UV spectra of the title molecules have also been constructed. PMID:24892532

  14. Influence of anthraquinone scaffold on E/Z isomer distribution of two thiosemicarbazone derivatives. 2D NMR and DFT studies

    NASA Astrophysics Data System (ADS)

    Marković, Violeta; Joksović, Milan D.; Marković, Svetlana; Jakovljević, Ivan

    2014-01-01

    A distribution of possible isomeric and tautomeric forms of two tautomerizable anthraquinone-thiosemicarbazones with pronounced cytotoxic potential was investigated using 2D NMR and DFT studies. Conformational analysis of the E and Z isomers of both thiosemicarbazones was performed to find out the most stable conformation for each molecule. It was found that superior stability of E-isomers results from ten-membered intramolecular hydrogen bond between thiosemicarbazone N2H and anthraquinone carbonyl group. This hydrogen bond is stronger than that between thiosemicarbazone N2H and ester oxygen, owing to the large partial negative charge on the anthraquinone oxygen.

  15. The main factors influencing the O vacancy formation on the Ir doped ceria surface: A DFT+U study

    NASA Astrophysics Data System (ADS)

    Yang, Z. X.; Ma, D. W.; Yu, X. H.; Hermansson, K.

    2010-10-01

    The effects of Ir doping on the oxygen vacancy formation energy have been investigated using the DFT+U method, i.e., first-principles density functional theory calculations with the inclusion of the on-site Coulomb interaction. The main factors influencing the reducibility of Ir-doped ceria are studied carefully. It is found that, although the Ir doping induces gap states (MIGS) as do other noble metals (Pd, Pt, Rh), the structural relaxation (instead of the electronic structure relaxation) is the main factor responsible for the decrease of the oxygen vacancy formation energy, i.e., the Ir doping makes structural distortions much more exothermic for the reduced ceria.

  16. Electron transfer between the heme bound oxygen and the tetrahydrobiopterin cofactor of nitric oxide synthase: a DFT study

    NASA Astrophysics Data System (ADS)

    Menyhárd, Dóra K.

    2004-07-01

    Nitric oxide is synthesized from L-Arg by nitric oxide synthases (NOSs). DFT calculations carried out in the present study demonstrate that there is direct coupling between the heme bound oxygen and the tetrahydrobiopterin (H 4B) cofactor in the activated state of NOS. Results indicate that radicalization of H 4B causes the coupled reduction of heme bound oxygen. In our model system H 3B rad radical formation is prompted by proton dissociation from the N5 site of the cofactor; spin density is transferred to the heme bound oxygen, which we found in an orientation preconditioned for H abstraction from the substrate.

  17. A DFT study on CO oxidation catalyzed by subnanometer AlCu n ( n = 1-3) clusters

    NASA Astrophysics Data System (ADS)

    Dong, Xiaona; Guo, Ling; Wen, Caixia; Ren, Ningning; Niu, Shuangshu

    2014-07-01

    Through the first-principle density-functional theory (DFT) calculations, we have made an exhaustive study of the mechanism of CO oxidation catalyzed by AlCu n ( n = 1-3) clusters on gas phase. It is shown that mixing two different metals (Al and Cu) can have beneficial effects on the catalytic activity than monometallic Cu n + 1 ( n = 1-3) cluster toward the reaction of CO oxidation and the alloyed AlCu3 cluster is proposed as the best effective nanocatalysts.

  18. Dithizone and its oxidation products: a DFT, spectroscopic, and X-ray structural study.

    PubMed

    von Eschwege, Karel G; Conradie, Jeanet; Kuhn, Annemarie

    2011-12-29

    Air oxidation of ortho-fluorodithizone resulted in the first X-ray resolved structure of a disulfide of dithizone, validating the last outstanding X-ray structure in the oxidation of dithizone, H(2)Dz, which proceeds via the disulfide, (HDz)(2), to the deprotonated dehydrodithizone tetrazolium salt, Dz. Density functional theory calculations established the energetically favored tautomers along the entire pathway; in gas phase and in polar as well as nonpolar solvent environments. DFT calculations using the classic pure OLYP and PW91, or the newer B3LYP hybrid functional, as well as MP2 calculations, yielded the lowest energy structures in agreement with corresponding experimental X-ray crystallographic results. Atomic charge distribution patterns confirmed the cyclization reaction pathway and crystal packing of Dz. Time dependent DFT for the first time gave satisfactory explanation for the solvatochromic properties of dithizone, pointing to different tautomers that give rise to the observed orange color in methanol and green in dichloromethane. Concentratochromism of H(2)Dz was observed in methanol. Computed orbitals and oscillators are in close agreement with UV-visible spectroscopic experimental results.

  19. Understanding the polar mechanism of the ene reaction. A DFT study.

    PubMed

    Domingo, Luis R; Aurell, Maria J; Pérez, Patricia

    2014-10-14

    The molecular mechanism of ene reactions has been characterised by DFT methods at the MPWB1K/6-311G(d,p) level of theory. Most reactions take place along a two-stage one-step mechanism in which the C-C bond formation takes place before the hydrogen transfer process. A very good correlation between the polar character of the reaction measured by the global electron density transfer at the transition state and the activation energy has been found. This behaviour allows establishing a useful classification of ene reactions in N-ene having a very high activation energy, P-ene reactions having activation energies between 35 and 20 kcal mol(-1), and H-ene reactions having activation energies below 20 kcal mol(-1). ELF topological analysis allows the characterisation of the two-stage one-step mechanism associated with a two-centre nucleophilic/electrophilic interaction. Formation of the C-C single bond is achieved by the C-to-C coupling of two pseudoradical centres formed at the two interacting carbon atoms in the first stage of the reaction. This topological analysis establishes that bonding changes are non-concerted. Finally, a DFT reactivity analysis makes it possible to characterise the electrophilic/nucleophilic behaviour of the reagents involved in ene reactions, and consequently, to predict the feasibility of ene reactions. PMID:25139695

  20. Dithizone and its oxidation products: a DFT, spectroscopic, and X-ray structural study.

    PubMed

    von Eschwege, Karel G; Conradie, Jeanet; Kuhn, Annemarie

    2011-12-29

    Air oxidation of ortho-fluorodithizone resulted in the first X-ray resolved structure of a disulfide of dithizone, validating the last outstanding X-ray structure in the oxidation of dithizone, H(2)Dz, which proceeds via the disulfide, (HDz)(2), to the deprotonated dehydrodithizone tetrazolium salt, Dz. Density functional theory calculations established the energetically favored tautomers along the entire pathway; in gas phase and in polar as well as nonpolar solvent environments. DFT calculations using the classic pure OLYP and PW91, or the newer B3LYP hybrid functional, as well as MP2 calculations, yielded the lowest energy structures in agreement with corresponding experimental X-ray crystallographic results. Atomic charge distribution patterns confirmed the cyclization reaction pathway and crystal packing of Dz. Time dependent DFT for the first time gave satisfactory explanation for the solvatochromic properties of dithizone, pointing to different tautomers that give rise to the observed orange color in methanol and green in dichloromethane. Concentratochromism of H(2)Dz was observed in methanol. Computed orbitals and oscillators are in close agreement with UV-visible spectroscopic experimental results. PMID:22103321

  1. QM(DFT) and MD studies on formation mechanisms of C60 fullerenes

    NASA Astrophysics Data System (ADS)

    Hua, Xinlei; Cagin, Tahir; Che, Jianwei; Goddard, William A., III

    2000-06-01

    One of the most puzzling aspects of fullerenes is how such complicated symmetric molecules are formed from a gas of atomic carbons, namely, the atomistic or chemical mechanisms. Are the atoms added one by one or as molecules (C2, C3)? Is there a critical nucleus beyond which formation proceeds at gas kinetic rates? What determines the balance between forming buckyballs, buckytubes, graphite and soot? The answer to these questions is extremely important in manipulating the systems to achieve particular products. A difficulty in current experiments is that the products can only be detected on time scales of microseconds long after many of the important formation steps have been completed. Consequently, it is necessary to use simulations, quantum mechanics and molecular dynamics, to determine these initial states. Experiments serve to provide the boundary conditions that severely limit the possibilities. Using quantum mechanical methods (density functional theory (DFT)) we derived a force field (MSXX FF) to describe one-dimensional (rings) and two-dimensional (fullerene) carbon molecules. Combining DFT with the MSXX FF, we calculated the energetics for the ring fusion spiral zipper (RFSZ) mechanism for formation of C60 fullerenes. Our results shows that the RFSZ mechanism is consistent with the quantum mechanics (with a slight modification for some of the intermediates).

  2. Synthesis, X-ray Structure, Spectroscopic Properties and DFT Studies of a Novel Schiff Base

    PubMed Central

    Chen, Kew-Yu; Tsai, Hsing-Yang

    2014-01-01

    A series of Schiff bases, salicylideneaniline derivatives 1–4, was synthesized under mild conditions and characterized by 1H NMR, HRMS, UV-Vis and fluorescence spectra, and single-crystal X-ray diffraction. In solid and aprotic solvents 1–4 exist mainly as E conformers that possess an intramolecular six-membered-ring hydrogen bond. A weak intramolecular C–H···F hydrogen bond is also observed in fluoro-functionalized Schiff base 4, which generates another S(6) ring motif. The C–H···F hydrogen bond further stabilizes its structure and leads it to form a planar configuration. Compounds 1–3 exhibit solely a long-wavelength proton-transfer tautomer emission, while dipole-functionalized Schiff base 4 shows remarkable dual emission originated from the excited-state intramolecular charge transfer (ESICT) and excited-state intramolecular proton transfer (ESIPT) states. Furthermore, the geometric structures, frontier molecular orbitals (MOs) and the potential energy curves for 1–4 in the ground and the first singlet excited state were fully rationalized by density functional theory (DFT) and time-dependent DFT calculations. PMID:25329613

  3. DFT, FT-Raman, FT-IR, HOMO-LUMO and NBO studies of 4-Methylmorpholine.

    PubMed

    Balachandran, V; Mahalakshmi, G; Lakshmi, A; Janaki, A

    2012-11-01

    The experimental FT-IR (4000-400 cm(-1)) and FT-Raman (3500-100 cm(-1)) spectra of 4-Methylmorpholine were recorded. The observed bands were interpreted with the aid of normal coordinate analysis and force field calculations based on density functional theory (DFT) using B3LYP functional theory (DFT) using B3LYP functional with 6-311+G and 6-3++G basis sets. The complete assignments were performed on the basis of the potential energy distribution (PED) of the vibrational modes, calculated with scaled quantum mechanical (SQM) method. The molecular structure and vibrational frequencies, infrared intensities and Raman scattering actives have been calculated frequency showed the best agreement with experimental results. The formation of the hydrogen bond was investigated using NBO calculations. The calculated HOMO and LUMO energies show that charge transfer occur within the molecule. The dipolemoment (μ) and polarizability (α), anisotropy polarizability (Δα) and first hyperpolarizability (β(total)) of the molecule have been reported. PMID:22929905

  4. Understanding the polar mechanism of the ene reaction. A DFT study.

    PubMed

    Domingo, Luis R; Aurell, Maria J; Pérez, Patricia

    2014-10-14

    The molecular mechanism of ene reactions has been characterised by DFT methods at the MPWB1K/6-311G(d,p) level of theory. Most reactions take place along a two-stage one-step mechanism in which the C-C bond formation takes place before the hydrogen transfer process. A very good correlation between the polar character of the reaction measured by the global electron density transfer at the transition state and the activation energy has been found. This behaviour allows establishing a useful classification of ene reactions in N-ene having a very high activation energy, P-ene reactions having activation energies between 35 and 20 kcal mol(-1), and H-ene reactions having activation energies below 20 kcal mol(-1). ELF topological analysis allows the characterisation of the two-stage one-step mechanism associated with a two-centre nucleophilic/electrophilic interaction. Formation of the C-C single bond is achieved by the C-to-C coupling of two pseudoradical centres formed at the two interacting carbon atoms in the first stage of the reaction. This topological analysis establishes that bonding changes are non-concerted. Finally, a DFT reactivity analysis makes it possible to characterise the electrophilic/nucleophilic behaviour of the reagents involved in ene reactions, and consequently, to predict the feasibility of ene reactions.

  5. NMR J-coupling constants in cisplatin derivatives studied by molecular dynamics and relativistic DFT.

    PubMed

    Sutter, Kiplangat; Truflandier, Lionel A; Autschbach, Jochen

    2011-06-01

    Solvent effects on J((195)Pt-(15)N) one-bond nuclear spin-spin coupling constants (J(PtN)) of cisplatin [cis-diamminedichloroplatinum(II)] and three cisplatin derivatives are investigated using a combination of density functional theory (DFT) based ab initio molecular dynamics (aiMD) and all-electron relativistic DFT NMR calculations employing the two-component relativistic zeroth-order regular approximation (ZORA). Good agreement with experiment is obtained when explicit solvent molecules are considered and when the computations are performed with a hybrid functional. Spin-orbit coupling causes only small effects on J(PtN) . Key factors contributing to the magnitude of coupling constants are elucidated, with the most significant being the presence of solvent as well as the quality of the density functional and basis set combination. The solvent effects are of the same magnitude as J(PtN) calculated for gas-phase geometries. However, the trends of J(PtN) among the complexes are already present in the gas phase. Results obtained with a continuum solvent model agree quite well with the aiMD results, provided that the Pt solvent-accessible radius is carefully chosen. The aiMD results support the existence of a partial hydrogen-bond-like inverse-hydration-type interaction affording a weak (1)J(Pt⋅⋅⋅H(w)) coupling between the complexes and the coordinating water molecule.

  6. Systematic DFT-GGA study of hydrogen adsorption on transition metals

    NASA Astrophysics Data System (ADS)

    Vasić, D.; Ristanović, Z.; Pašti, I.; Mentus, S.

    2011-12-01

    Computational study of hydrogen adsorption on (111) surface of transition metals with face centered cubic (fcc) lattice is reported and the results are compared with available experimental and theoretical data. In addition, dissociative adsorption of hydrogen on Pt(111), Pt(100) and Pt(110) is studied in the range of coverage from 0.25 to 1 monolayer. In the case of Pt(111) preferential adsorption site was found to be three-coordinated fcc-hollow site, while on Pt(100) and Pt(110) surface hydrogen settles on two-coordinated bridge and short bridge site, respectively. Hydrogen adsorption energy was found to decrease with the increasing coverage. Structural changes of studied Pt surfaces upon hydrogen adsorption have been compared with the experimental data existing in the literature and good qualitative agreement has been obtained.

  7. A DFT study of adsorption of glycine onto the surface of BC2N nanotube

    NASA Astrophysics Data System (ADS)

    Soltani, Alireza; Azmoodeh, Zivar; Javan, Masoud Bezi; Lemeski, E. Tazikeh; Karami, Leila

    2016-10-01

    A theoretical study of structure and the energy interaction of amino acid glycine (NH2CH2COOH) with BC2N nanotube is crucial for apperception behavior occurring at the nanobiointerface. Herein, we studied the adsorption of glycine in their radical and zwitterionic forms upon the surface of BC2N nanotube using M06 functional and 6-311G** standard basis set. We also considered the different orientations of the glycine amino acid on the surface of adsorbent. Further, we found out that the stability of glycine from its carbonyl group is higher than hydroxyl and amine groups. Our results also indicated that the electronic structure of BC2N nanotube on the adsorption of glycine from its amine group is more altered than the other groups. Our study exhibits that opto-electronic property of adsorbent is changed after the glycine adsorption.

  8. Theoretical and experimental study of thermoacoustic engines

    NASA Astrophysics Data System (ADS)

    Raspet, Richard; Bass, Henry E.; Arnott, W. P.

    1992-12-01

    A three year study of thermoacoustic engines operating as prime movers and refrigerators was completed. The major thrust of this effort was the use and theoretical description of ceramic honeycomb structures as the active element in thermoacoustic engines. An air-filled demonstration prime mover was constructed and demonstrated at Acoustical Society of America and IEE meetings. A helium-filled test prime mover was designed and built an is being employed in studies of the threshold of oscillation as a function of temperature difference and pressure. In addition, acoustically based theories of the thermoacoustic engine have been developed and tested for a parallel plate stack at the Naval Postgraduate School and for a honeycomb stack at the University of Mississippi. Most of this work is described in detail in the attached publications. In this report we will give an overview of the research completed to date and its relationship to work performed at the Naval Postgraduate School and to future work at the University of Mississippi.

  9. Theoretical and Experimental Studies of Radiative Shocks

    NASA Astrophysics Data System (ADS)

    Michaut, C.; Vinci, T.; Boireau, L.; Koenig, M.; Bouquet, S.; Benuzzi-Mounaix, A.; Osaki, N.; Herpe, G.; Falize, E.; Loupias, B.; Atzeni, S.

    2007-01-01

    This paper deals with the radiative shock from both theoretical and numerical points of view. It is based on the whole experimental results obtained at Laboratoire d'Utilisation des Lasers Intenses (LULI, École Polytechnique). Radiative shocks are high-Mach number shocks with a strong coupling between radiation and hydrodynamics which leads to a structure governed by a radiative precursor. These shocks are involved in various astrophysical systems: stellar accretion shocks, pulsating stars, interaction between supernovae and the interstellar medium. In laboratory, these radiative shocks are generated using high power lasers. New diagnostics have been implemented to study the geometrical shape of the shock and the front shock density. Data were obtained varying initial conditions for different laser intensities and temperature. The modeling of these phenomena is mainly performed through numerical simulations (1D and 2D) and analytical studies. We exhibit results obtained from several radiative hydrodynamics codes. As a result, it is possible to discuss about the influence of the geometry and physical parameters introduced in the 1D and 2D models.

  10. ¹J(CH) couplings in Group 14/IVA tetramethyls from the gas-phase NMR and DFT structural study: a search for the best computational protocol.

    PubMed

    Nazarski, Ryszard B; Makulski, Włodzimierz

    2014-08-01

    Four tetramethyl compounds EMe4 (E = C, Si, Ge, and Pb) were studied by high-resolution NMR spectroscopy in gaseous and liquid states at 300 K. Extrapolation of experimental vapor-phase C-H J-couplings to a zero-pressure limit permitted determining the (1)J(0,CH)s in methyl groups of their nearly isolated molecules. Theoretical predictions of the latter NMR parameters were also performed in a locally dense basis sets/pseudopotential (Sn, Pb) approach, by applying a few DFT methods pre-selected in calculations of other gas-phase molecular properties of all these species and SnMe4 (bond lengths, C-H stretching IR vibrations). A very good agreement theory vs. experiment was achieved with some computational protocols for all five systems. The trends observed in their geometry and associated coupling constants ((1)J(CH)s, (2)J(HH)s) are discussed and rationalized in terms of the substituent-induced rehybridization of the methyl group (treated as a ligand) carbon, by using Bent's rule and the newly proposed, theoretically derived values of the Mulliken electronegativity (χ) of related atoms and groups. All these χ data for the Group-14/IVA entities were under a lot of controversy for a very long time. As a result, the recommended χ values are semi-experimentally confirmed for the first time and only a small correction is suggested for χ(Ge) and χ(GeMe3).

  11. Synthesis, characterization, DFT and biological studies of isatinpicolinohydrazone and its Zn(II), Cd(II) and Hg(II) complexes

    NASA Astrophysics Data System (ADS)

    El-Gammal, O. A.; Rakha, T. H.; Metwally, H. M.; Abu El-Reash, G. M.

    2014-06-01

    Isatinpicolinohydrazone (H2IPH) and its Zn(II), Cd(II) and Hg(II) complexes have been synthesized and investigated using physicochemical techniques viz. IR, 1H NMR, 13C NMR, UV-Vis spectrometric methods and magnetic moment measurements. The investigation revealed that H2IPH acts as binegative tetradentate in Zn(II), neutral tridentate in Cd(II) and as neutral bidentate towards Hg(II) complex. Octahedral geometry is proposed for all complexes. The bond length, bond angle, chemical reactivity, energy components (kcal/mol), binding energy (kcal/mol) and dipole moment (Debyes) for all the title compounds were evaluated by DFT and also MEP for the ligand is shown. Theoretical infrared intensities of H2IPH and also the theoretical electronic spectra of the ligand and its complexes were calculated. The thermal behavior and the kinetic parameters of degradation were determined using Coats-Redfern and Horowitz-Metzger methods. The in vitro antibacterial studies of the complexes proved them as growth inhibiting agents. The DDPH antioxidant of the compounds have been screened. Antitumor activity, carried out in vitro on human mammary gland (breast) MCF7, have shown that Hg(II) complex exhibited potent activity followed by Zn(II), Cd(II) complexes and the ligand.

  12. TD-DFT study on fluoride-sensing mechanism of 2-(2'-phenylureaphenyl)benzoxazole: the way to inhibit the ESIPT process.

    PubMed

    Li, Guang-Yue; Chu, Tianshu

    2011-12-14

    The fluoride-sensing mechanism of the sensor 2-(2'-phenylurea-phenyl)benzoxazole (PUBO) has been investigated by means of the TD-DFT method. The present theoretical study indicates that there is an excited-state intramolecular proton transfer (ESIPT) process in the sensor PUBO. The added fluoride anion could capture the proton in the free N-H moiety instead of the hydrogen-bonding one. The experimental UV/Vis and fluorescence spectra (J. Org. Chem. 2007, 72, 62) are well reproduced by the calculated vertical excitation energies in the ground state and the first singlet excited state. For example, the calculated emission wavelength of PUBO at 534 nm is very close to the fluorescence band at 554 nm. Furthermore, we theoretically confirmed that the added fluoride anions could inhibit the ESIPT process in PUBO. But different from the classical ESIPT-inhibition mechanism, the ESIPT process in the sensor PUBO is inhibited by the high energy barrier of its deprotonated form rather than by the absence of the transferred proton.

  13. Electronic structure of interstitial hydrogen in lutetium oxide from DFT+U calculations and comparison study with μ SR spectroscopy

    NASA Astrophysics Data System (ADS)

    da Silva, E. Lora; Marinopoulos, A. G.; Vieira, R. B. L.; Vilão, R. C.; Alberto, H. V.; Gil, J. M.; Lichti, R. L.; Mengyan, P. W.; Baker, B. B.

    2016-07-01

    The electronic structure of hydrogen impurity in Lu2O3 was studied by first-principles calculations and muonium spectroscopy. The computational scheme was based on two methods which are well suited to treat defect calculations in f -electron systems: first, a semilocal functional of conventional density-functional theory (DFT) and secondly a DFT+U approach which accounts for the on-site correlation of the 4 f electrons via an effective Hubbard-type interaction. Three different types of stable configurations were found for hydrogen depending upon its charge state. In its negatively charged and neutral states, hydrogen favors interstitial configurations residing either at the unoccupied sites of the oxygen sublattice or at the empty cube centers surrounded by the lanthanide ions. In contrast, the positively charged state stabilized only as a bond configuration, where hydrogen binds to oxygen ions. Overall, the results between the two methods agree in the ordering of the formation energies of the different impurity configurations, though within DFT+U the charge-transition (electrical) levels are found at Fermi-level positions with higher energies. Both methods predict that hydrogen is an amphoteric defect in Lu2O3 if the lowest-energy configurations are used to obtain the charge-transition, thermodynamic levels. The calculations of hyperfine constants for the neutral interstitial configurations show a predominantly isotropic hyperfine interaction with two distinct values of 926 MHz and 1061 MHz for the Fermi-contact term originating from the two corresponding interstitial positions of hydrogen in the lattice. These high values are consistent with the muonium spectroscopy measurements which also reveal a strongly isotropic hyperfine signature for the neutral muonium fraction with a magnitude slightly larger (1130 MHz) from the ab initio results (after scaling with the magnetic moments of the respective nuclei).

  14. Dry (CO2) reforming of methane over Pt catalysts studied by DFT and kinetic modeling

    NASA Astrophysics Data System (ADS)

    Niu, Juntian; Du, Xuesen; Ran, Jingyu; Wang, Ruirui

    2016-07-01

    Dry reforming of methane (DRM) is a well-studied reaction that is of both scientific and industrial importance. In order to design catalysts that minimize the deactivation and improve the selectivity and activity for a high H2/CO yield, it is necessary to understand the elementary reaction steps involved in activation and conversion of CO2 and CH4. In our present work, a microkinetic model based on density functional theory (DFT) calculations is applied to explore the reaction mechanism for methane dry reforming on Pt catalysts. The adsorption energies of the reactants, intermediates and products, and the activation barriers for the elementary reactions involved in the DRM process are calculated over the Pt(1 1 1) surface. In the process of CH4 direct dissociation, the kinetic results show that CH dissociative adsorption on Pt(1 1 1) surface is the rate-determining step. CH appears to be the most abundant species on the Pt(1 1 1) surface, suggesting that carbon deposition is not easy to form in CH4 dehydrogenation on Pt(1 1 1) surface. In the process of CO2 activation, three possible reaction pathways are considered to contribute to the CO2 decomposition: (I) CO2* + * → CO* + O*; (II) CO2* + H* → COOH* + * → CO* + OH*; (III) CO2* + H* → mono-HCOO* + * → bi-HCOO* + * [CO2* + H* → bi-HCOO* + *] → CHO* + O*. Path I requires process to overcome the activation barrier of 1.809 eV and the forward reaction is calculated to be strongly endothermic by 1.430 eV. In addition, the kinetic results also indicate this process is not easy to proceed on Pt(1 1 1) surface. While the CO2 activation by H adsorbed over the catalyst surface to form COOH intermediate (Path II) is much easier to be carried out with the lower activation barrier of 0.746 eV. The Csbnd O bond scission is the rate-determining step along this pathway and the process needs to overcome the activation barrier of 1.522 eV. Path III reveals the CO2 activation through H adsorbed over the catalyst

  15. Synthesis of two new silver(I) complexes with 3-bromoquinoline: Molecular structure, spectroscopic characterizations and DFT studies.

    PubMed

    Soliman, Saied M; Abu-Youssef, Morsy A M; Kassem, Taher S; Assem, Rania

    2015-01-01

    Two new Ag(+) complexes with 3-bromoquinoline (3BrQ) have been synthesized and characterized using elemental analysis, FTIR, NMR and mass spectra. The studied complexes have the formula [Ag(3BrQ)(OAC)]; 1 and [Ag(3BrQ)3(TCA)]; 2 where OAC and TCA are acetate and trichloroacetate, respectively. Based on the DFT calculations, 1 and 2 showed distorted trigonal planar and distorted tetrahedral coordination geometry. The electronic properties such as dipole moment (μ), polarizability (α0), HOMO and LUMO energies are calculated using the same level of theory. These electronic parameters were used to predict the nonlinear optical properties of the studied compounds. The studied silver complexes were predicted to be better nonlinear optical materials than urea. The electronic spectra of these complexes are calculated using the TD-DFT calculations. The infrared vibrational spectra were assigned based on the potential energy distribution (PED) analysis. The calculated (1)H NMR chemical shift values using GIAO approach showed good agreement with the experimental data. The intramolecular charge transfer interactions of the title molecules were studied by natural bond orbital (NBO) analysis. PMID:25965520

  16. Vibrational spectroscopic and DFT calculation studies of a new organic-inorganic compound of bis (4-acetylanilinium) tetrachlorocadmiate (II)

    NASA Astrophysics Data System (ADS)

    Jellibi, A.; Chaabane, I.; Guidara, K.

    2016-10-01

    The FT-IR and Raman vibrational spectra of bis (4-acetylanilinium) tetrachlorocadmiate (II) compound have been measured at room temperature by FT-infrared spectroscopy (4000-400 cm-1) on polycrystalline samples, and by Raman spectroscopy (3600-30 cm-1) on monocrystals. The structure of the [C8H10NO] 2CdCl4 formed by two cations [C8H10NO]+ of same type and one type of anion [CdCl4]2- was optimized by density functional theory (DFT) using the B3LYP method. The theoretical wavenumbers spectra were scaled by multiple scaling factors, yielding a good agreement between the experimentally recorded and the theoretically calculated values. Root mean square (rms) value was calculated and the small difference between experimental and calculated modes has been interpreted by intermolecular interactions in the crystal. The comparison between the [C8H9NO] ligand and the [C8H10NO]2[CdCl4] compound of the Raman spectra showed a decrease in the wavenumber of the bands assigned to the stretching vibration of (NH3) group in the compound due to the effect of the protonation of the nitrogen.

  17. Experiment and DFT studies on radioiodine removal and storage mechanism by imidazolium-based ionic liquid.

    PubMed

    Cao, Bobo; Liu, Shuangyue; Du, Dongmei; Xue, Zhimin; Fu, Hui; Sun, Haitao

    2016-03-01

    In order to remove and store radioactive substances effectively, studies on the mechanisms of radioiodine captured by ionic liquids (ILs) with a fixed cation (1-butyl-3-methyl-imidazolium cation [Bmim]+) were carried out in experimental and theoretical methods. Fourier transform infrared attenuated total reflectance (FT-IR ATR) spectra of 2BP8HQ and ultraviolet-visible (UV/vis) spectroscopy were used to investigate the kinetic process of radioiodine removal by ILs in experiment. Corresponding theoretical investigations on the structures and formation mechanisms of ILs, bare anions and complexes as well as hydrogen bonds was carried using density functional theory. The electrostatic potential was used in configuration design and construction. Charge distribution was used to show the variation of atom charge density, Interaction energy and vibration frequency change were performed to explore possible mechanisms on the halogen bond formation between radioiodine molecule and bare anion or anion in ILs when radioiodine captured by ILs. In order to characterize halogen bonds both natural bond orbital analysis and atoms in molecules analysis were performed. Both experimental and computational results showed that radioiodine could be captured by ILs with a 1:1mol stoichiometry. It was noteworthy that [Bmim][Br], [Bmim][I] and [Bmim][Cl], containing high radioiodine capture efficiency anions, were better candidates in removal and reliable storage of radioiodine for their capture efficiencies of over 80% in 5h. PMID:26774640

  18. Effect of Base Stacking on the Acid-Base Properties of the Adenine Cation Radical [A•+] in Solution: ESR and DFT Studies

    PubMed Central

    Adhikary, Amitava; Kumar, Anil; Khanduri, Deepti

    2015-01-01

    In this study, the acid–base properties of the adenine cation radical are investigated by means of experiment and theory. Adenine cation radical (A•+) is produced by one-electron oxidation of dAdo and of the stacked DNA-oligomer (dA)6 by Cl2•− in aqueous glass (7.5 M LiCl in H2O and in D2O) and investigated by ESR spectroscopy. Theoretical calculations and deuterium substitution at C8–H and N6–H in dAdo aid in our assignments of structure. We find the pKa value of A•+ in this system to be ca. 8 at 150 K in seeming contradiction to the accepted value of ≤ 1 at ambient temperature. However, upon thermal annealing to ≥160 K, complete deprotonation of A•+ occurs in dAdo in these glassy systems even at pH ca. 3. A•+ found in (dA)6 at 150 K also deprotonates on thermal annealing. The stability of A•+ at 150 K in these systems is attributed to charge delocalization between stacked bases. Theoretical calculations at various levels (DFT B3LYP/6-31G*, MPWB95, and HF-MP2) predict binding energies for the adenine stacked dimer cation radical of 12 to 16 kcal/mol. Further DFT B3LYP/6-31G* calculations predict that, in aqueous solution, monomeric A•+ should deprotonate spontaneously (a predicted pKa of ca. −0.3 for A•+). However, the charge resonance stabilized dimer AA•+ is predicted to result in a significant barrier to deprotonation and a calculated pKa of ca. 7 for the AA•+ dimer which is 7 pH units higher than the monomer. These theoretical and experimental results suggest that A•+ isolated in solution and A•+ in adenine stacks have highly differing acid–base properties resulting from the stabilization induced by hole delocalization within adenine stacks. PMID:18611019

  19. An innovative method for the non-destructive identification of photodegradation products in solid state: 1H-14N NMR-NQR and DFT/QTAIM study of photodegradation of nifedipine (anti-hypertensive) to nitrosonifedipine (potential anti-oxidative).

    PubMed

    Latosińska, J N; Latosińska, M; Seliger, J; Zagar, V

    2012-08-30

    Stability of the antihypertensive drug nifedipine (NIF) has been studied experimentally in solid state by (1)H-(14)N NMR-NQR double resonance (NQDR) and theoretically by the Density Functional Theory (DFT). Photodegradation of NIF to its metabolite in vivo nitrosonifedipine, NO-NIF (antioxidative agent) upon long term daylight exposure was detected and the changes in the molecular structure of NIF were analysed. The photoconversion of NIF to NO-NIF in solid was found to be accompanied with the electron density redistribution at nitrogen sites (NH to N and NO(2) to NO) and proved to be successfully detected with identification of photoproducts by (1)H-(14)N NQDR and DFT methods. The increase in the e(2)qQ/h and η describing EFG tendency towards non-spherical symmetry was significantly greater upon the reduction of NO(2) site than upon hydrogen abstraction from NH site. The level of sensitivity of detection of the photodegradation product was about 1% of the original sample. The Quantum Theory of Atoms in Molecules (QTAIM) analysis has been found useful in predicting photoreactive sites in the molecules and finding the explanation of differences in reactivity between parent NIF and its photoproduct NO-NIF. Using NIF as a model, this study demonstrates the suitability of NQDR supported by DFT for non-destructive determination of the photodegradation products in solid state.

  20. Guanidine complexes of platinum: a theoretical study.

    PubMed

    Marin-Luna, Marta; Sanchez-Sanz, Goar; O'Sullivan, Patrick; Rozas, Isabel

    2014-07-24

    We have studied theoretically the complexes of model N-phenylguanidine/ium derivatives with PtCl3(-) and PtCl2 in different coordinating modes (mono- and bidentate) with different N atoms of the guanidine/ium moiety using the B3LYP/6-31+G** and LANL2DZ mixed basis set. This will aid the understanding of the complexation between platinum and the guanidine or guanidinium moiety in order to design dual anticancer agents that combine a guanidine-based DNA minor groove binder and a cisplatin-like moiety. Calculated interaction and relative energies, analysis of the electron density, and examination of the orbital interactions indicate that the most stable type of complex is that with a monodentate interaction between PtCl3(-) and guanidinium established through one of the NH2 groups. Next, we optimized the structure of three bis-guanidinium diaromatic systems developed in our group as DNA minor groove binders and their complexation with PtCl3(-), finding that the formation of Pt complexes of these minor groove binders is favorable and would produce stable monodentate coordinated systems. PMID:24988181

  1. Effects of metal elements in catalytic growth of carbon nanotubes/graphene: A first principles DFT study

    NASA Astrophysics Data System (ADS)

    Li, Jingde; Croiset, Eric; Ricardez-Sandoval, Luis

    2014-10-01

    Role of metals in the catalytic Chemical Vapor Deposition (CVD) growth of carbon nanotubes (CNTs) or graphene was investigated using DFT. Crucial processes involved in the growth of CNTs/graphene: methane dissociation to produce C, C diffusion and nucleation kinetics were studied on the (1 1 1) surface of different transition metals, i.e., Fe, Co, Ni, and Cu. Based on the DFT calculation results, the present study explains why Ni-based catalyst is a suitable CVD substrate for growing CNTs: it has a moderate reactivity towards methane dissociation; low energy barrier for C atom surface diffusion, which makes C to diffuse easily to the metal/CNTs edges and contribute to CNTs growth; relatively high nucleation barriers, making it more resistant for deactivation caused by the cover of carbon clusters. Meanwhile, this study also shows that Cu may be an appropriate catalyst for graphene synthesis due to the particularly low diffusion and nucleation barriers of C atoms on Cu, which suggest that C atoms tend to be more uniformly distributed and nucleate easily on the Cu surface. Key limitation of Cu is the low reactivity of this metal towards methane dissociation. Since Fe and Ni are very reactive towards Csbnd H bond breaking, Cu based alloys, e.g. Cu8Ni, were proposed as a suitable catalyst for graphene production.

  2. Synthesis, characterization and DFT studies of two new silver(I) complexes with 3,4-lutidine

    NASA Astrophysics Data System (ADS)

    Soliman, Saied M.; Assem, Rania; Abu-Youssef, Morsy A. M.; Kassem, Taher S.

    2015-04-01

    The synthesis, characterization and molecular structure of two new Ag(I) complexes with 3,4-lutidine (34lut) have been reported. The [Ag(34lut)3(OAC)]; 1 and [Ag(34lut)2(TFA)]; 2 complexes, where OAC and TFA are acetate and trifluoroacetate respectively, have been characterized using elemental analysis, FTIR, NMR and mass spectra. Their molecular structures were calculated using DFT quantum chemical calculations. Both 1 and 2 were found to have distorted tetrahedral geometry around the Ag(I). The spectroscopic properties of the studied complexes have been calculated using the same level of theory. The Infrared vibrational frequencies of the COO stretches confirmed that the OAC is monodentate in 1 while the TFA is bidentate in 2. The calculated polarizability (α0) and HOMO-LUMO energy gap (ΔE) values indicated that 1 has higher NLO activity than 2. The electronic spectra of these complexes are calculated using the TD-DFT calculations. The calculated 1H NMR chemical shift values using GIAO approach showed good correlations with the experimental data. The interaction energies using the second order perturbation theory have been used to study the different intramolecular charge transfer interactions in the studied complexes. The NBO calculations indicated that both the Agsbnd O bonds are almost identical in 2 but not in 1.

  3. Iron Porphyrins with Different Imidazole Ligands. A Theoretical Comparative Study

    PubMed Central

    Liao, Meng-Sheng; Huang, Ming-Ju; Watts, John D.

    2010-01-01

    A theoretical comparative study of a series of five- and six-coordinate iron porphyrins, FeP(L) and FeP(L)(O2), has been carried out using DFT methods, where P = porphine and L = imidazole (Im), 1-methylimidazole (1-MeIm), 2-methylimidazole (2-MeIm), 1,2-dimethylimidazole (1,2-Me2Im), 4-ethylimidazole (4-EtIm), or histidine (His). Two ligated “picket fence” iron porphyrins, FeTpivPP(2-MeIm) and FeTpivPP(2-MeIm)(O2), were also included in the study for comparison. A number of density functionals were employed in the computations in order to obtain reliable results. The performance of functionals and basis set effects were investigated in detail on FeP, FeP(Im), and FeP(Im)(O2), for which certain experimental information is available and there are some previous calculations in the literature for comparison. Many subtle distinctions in the effects of the different imidazole ligands on the structures and energetics of the deoxy- and oxy iron porphyrins are revealed. While FeP(2-MeIm) is identified to be high spin (S = 2), the ground state of FeP(1-MeIm) may be an admixture of a high-spin (S = 2) and an intermediate-spin (S = 1) state. The ground state of FeP(L)(O2) may be different with different L. A weaker Fe-L bond more likely leads to an open-shell singlet ground state for the oxy complex. The 2-methyl group in 2-MeIm, which increases steric contact between the ligand and the porphyrinato skeleton, weakens the Fe-O2 bond, and thus iron porphyrins with 2-MeIm mimic T-state (low affinity) hemoglobin. The calculated FeP(2-MeIm)–O2 bonding energy is comparable to the FeTpivPP(2-MeIm)–O2 one, in agreement with the fact that the “picket-fence” iron porphyrin binds O2 with affinity similar to that of myoglobin, but different from the result obtained by the CPMD scheme. Im and 4-EtIm closely resemble His, the biologically axial base, and so future computations on hemoprotein models can be simplified safely by using Im. PMID:20712371

  4. The guanidine and benzoic acid (1:1) complex. The polarized vibrational studies and theoretical investigations

    NASA Astrophysics Data System (ADS)

    Drozd, M.; Dudzic, D.

    2015-03-01

    The structure of guanidinium benzoate was discovered by Silva et al. On the basis of these X-ray crystallographic studies the detailed DFT investigation are performed. According to this result the infrared spectrum for one theoretical molecule was calculated. On the basis of potential energy distribution (PED) analysis the clear-cut assignments of observed bands were performed. For the calculated molecule with energy minimum the highest occupied molecular orbital (HOMO) and the lowest unoccupied molecular orbital (LUMO) were obtained. The energy difference between HOMO and LUMO was analyzed. According to theoretical calculations the direction of dipole moments (TDM) for bands observed in infrared spectra are analyzed. Verification of theoretical TDM behaviors is performed on the basis of experimental polarized specular reflection infrared spectra. The detailed assignments of observed bands is presented. Both theoretical and experimental spectra are compared. Crucial role of three different hydrogen bonds is studied in detail. Additionally, on the basis of differential scanning calorimetric study no phase transition was found in investigated crystal in the range 100-400 K.

  5. Experimental, DFT and molecular docking studies on 2-(2-mercaptophenylimino)-4-methyl-2H-chromen-7-ol

    NASA Astrophysics Data System (ADS)

    Singh, Ashok Kumar; Singh, Ravindra Kumar

    2016-10-01

    A new coumarin derivative 2-(2-mercaptophenylimino)-4-methyl-2H-chromen-7-ol (COMSB) was synthesized and characterized with the help of 1H,13C NMR, FT-IR, FT-Raman and mass spectrometry. All quantum calculations were performed at DFT level of theory using B3LYP functional and 6-31G (d,p) as basis set. The UV-Vis spectrum studied by TD-DFT theory, with a hybrid exchange-correlation functional using Coulomb-attenuating method (CAM-B3LYP) in solvent phase gives similar pattern of bands, at energies and is consistent with that of experimental findings. The detailed analysis of vibrational (IR and Raman) spectra and their assignments has been done by computing Potential Energy Distribution (PED) using Gar2ped. Intra-molecular interactions were analyzed by 'Atoms in molecule' (AIM) approach. Computed first static hyperpolarizability (β0 = 8.583 × 10-30 esu) indicates non-linear optical (NLO) response of the molecule. Molecular docking studies show that the title molecule may act as potential acetylcholine esterase (AChE) inhibitor.

  6. Sibutramine characterization and solubility, a theoretical study

    NASA Astrophysics Data System (ADS)

    Aceves-Hernández, Juan M.; Nicolás Vázquez, Inés; Hinojosa-Torres, Jaime; Penieres Carrillo, Guillermo; Arroyo Razo, Gabriel; Miranda Ruvalcaba, René

    2013-04-01

    Solubility data from sibutramine (SBA) in a family of alcohols were obtained at different temperatures. Sibutramine was characterized by using thermal analysis and X-ray diffraction technique. Solubility data were obtained by the saturation method. The van't Hoff equation was used to obtain the theoretical solubility values and the ideal solvent activity coefficient. No polymorphic phenomena were found from the X-ray diffraction analysis, even though this compound is a racemic mixture of (+) and (-) enantiomers. Theoretical calculations showed that the polarisable continuum model was able to reproduce the solubility and stability of sibutramine molecule in gas phase, water and a family of alcohols at B3LYP/6-311++G (d,p) level of theory. Dielectric constant, dipolar moment and solubility in water values as physical parameters were used in those theoretical calculations for explaining that behavior. Experimental and theoretical results were compared and good agreement was obtained. Sibutramine solubility increased from methanol to 1-octanol in theoretical and experimental results.

  7. DFT STUDY OF HYDROGEN STORAGE ON Li- AND Na-DOPED C59B HETEROFULLERENE

    NASA Astrophysics Data System (ADS)

    Zahedi, Ehsan; Mozaffari, Majid

    2014-05-01

    Effect of light alkali metal (Li and Na) decorated on the C59B heterofullerene for hydrogen storage is considered using DFT-MPW1PW91 method. Results show that Li and Na atoms strongly prefer to adsorb on top of five-member and six-member ring where a carbon atom is replaced by a boron atom. Significant charge transfer from the alkali metal to the C59B compensates for the electron deficiency of C59B and makes the latter aromatic in nature. Corrected binding energies of hydrogen molecule on the alkali-doped C59B using counterpoise method, structural properties and NBO analysis indicate that first hydrogen molecule is adsorbed physically and does not support minimal conditions of DOE requirement. Finally, positive values of binding energies for the adsorption of a second hydrogen molecule show that alkali doped C59B are capable of storing a maximum of one hydrogen molecule.

  8. A 45Sc-NMR and DFT calculation study of crystalline scandium compounds

    NASA Astrophysics Data System (ADS)

    Bräuniger, Thomas; Hofmann, Andreas J.; Moudrakovski, Igor L.; Hoch, Constantin; Schnick, Wolfgang

    2016-01-01

    A series of scandium compounds, namely ScPO4, ScOF, Li3Sc(BO3)2, and CaSc2O4, were prepared according to procedures described in the literature, and then characterised by powder X-ray diffraction and solid-state 45Sc-NMR spectroscopy. By computer fitting, the quadrupolar interaction parameters χ and η, as well as the isotropic chemical shifts δiso were extracted from the NMR spectra. For comparison and site assignment of 45Sc, density functional theory (DFT) calculations of the EFG tensor were carried out with the CASTEP code. For the compounds with a well-defined formal coordination number (CN), a convincing linear correlation between CN and isotropic chemical shift could be established.

  9. DFT calculations, spectroscopy and antioxidant activity studies on (E)-2-nitro-4-[(phenylimino)methyl]phenol

    NASA Astrophysics Data System (ADS)

    Temel, Ersin; Alaşalvar, Can; Gökçe, Halil; Güder, Aytaç; Albayrak, Çiğdem; Alpaslan, Yelda Bingöl; Alpaslan, Gökhan; Dilek, Nefise

    2015-02-01

    We have reported synthesis and characterization of (E)-2-nitro-4-[(phenylimino)methyl]phenol by using X-ray crystallographic method, FT-IR and UV-vis spectroscopies and density functional theory (DFT). Optimized geometry and vibrational frequencies of the title compound in the ground state have been computed by using B3LYP with the 6-311G+(d,p) basis set. HOMO-LUMO energy gap, Non-linear optical properties and NBO analysis of the compound are performed at B3LYP/6-311G+(d,p) level. Additionally, as remarkable properties, antioxidant activity of the title compound (CMPD) has been determined by using different antioxidant test methods i.e. ferric reducing antioxidant power (FRAP), hydrogen peroxide scavenging (HPSA), free radical scavenging (FRSA) and ferrous ion chelating activities (FICA). When compared with standards (BHA, BHT, and α-tocopherol), we have concluded that CPMD has effective FRAP, HPSA, FRSA and FICA.

  10. Structural studies of methyl brevifolincarboxylate in solid state by means of NMR spectroscopy and DFT calculations

    NASA Astrophysics Data System (ADS)

    Wolniak, Michał; Tomczyk, Michał; Gudej, Jan; Wawer, Iwona

    2006-12-01

    Methyl brevifolincarboxylate isolated from the herb of Potentilla argentea L. (Rosaceae) is a representative of the naturally occurring polyphenols. The compound is of pharmaceutical interest mainly because of its antiviral and antioxidant properties. 13C NMR spectra were recorded for solution and solid phase. 13C CPMAS spectra were assigned by comparison with solution data, dipolar dephasing and short contact time experiments. The correctness of assignments was verified by GIAO DFT calculations of shielding constants. The differences between the solution and solid state chemical shift values were explained in terms of orientation of OH groups and intramolecular hydrogen bonds. The splitting of the C1 dbnd O resonance shows that there exists a polymorphism in the solid phase, which might be due to the formation of intramolecular hydrogen bond involving carbonyl or methoxy oxygen (i.e. C10 sbnd OH⋯O dbnd C or C10 sbnd OH⋯OCH 3).

  11. First-principles DFT +GW study of oxygen vacancies in rutile TiO2

    NASA Astrophysics Data System (ADS)

    Malashevich, Andrei; Jain, Manish; Louie, Steven G.

    2014-02-01

    We perform first-principles calculations of the quasiparticle defect states, charge transition levels, and formation energies of oxygen vacancies in rutile titanium dioxide. The calculations are done within the recently developed combined DFT +GW formalism, including the necessary electrostatic corrections for the supercells with charged defects. We find the oxygen vacancy to be a negative U defect, where U is the defect electron addition energy. For Fermi level values below ˜2.8 eV (relative to the valence-band maximum), we find the +2 charge state of the vacancy to be the most stable, while above 2.8 eV we find that the neutral charge state is the most stable.

  12. Carbon bridged triphenolate lanthanide complexes: synthesis, characterization, DFT studies and catalytic activities for isoprene polymerization.

    PubMed

    Zhang, Min; Liang, Zhenhua; Ling, Jun; Ni, Xufeng; Shen, Zhiquan

    2015-06-28

    The dinuclear lanthanide complexes [Ln2(L)2(THF)n] (Ln = Nd (1) n = 4, Gd (2) n = 3, Lu (3) n = 2) supported by carbon bridged triphenolate ligands [LH3 = tris(3,5-di-tert-butyl-2-hydroxyphenyl)methane] were synthesized via a salt metathesis reaction between lanthanide trichlorides and LNa3 in THF. All complexes were characterized by elemental analysis and X-ray crystallography, and complex 3 was characterized by (1)H and (13)C NMR spectroscopy. Agostic interactions were found in these complexes and were further substantiated by DFT calculations of complex 3. These lanthanide complexes in combination with aluminum alkyls and [Ph3C](+)[B(C6F5)4](-) generated efficient homogeneous catalysts for the cis-1,4 polymerization of isoprene, with complex 1 having the best catalytic activity. PMID:26008592

  13. A DFT +DMFT study of magnetic properties of FeO at high pressure

    NASA Astrophysics Data System (ADS)

    Zhang, Peng; Cohen, Ronald; Haule, K.

    FeO is an insulator with anti-ferromagnetic (AFM) spin ordering at ambient pressure. When external pressure is increased, the Néel temperature first increases at the pressure below 40 GPa. Experiments show the AFM ordering collapses at high pressures. Using the density functional theory plus dynamical mean-field theory (DFT +DMFT), we examined the nature of magnetic collapse of FeO and derived its magnetic phase diagram up to 180 Gpa. We found coexistence of high spin-low spin transition and paramagnetic-AFM transition, both driven by increased pressure. The high spin-low spin transition is result of partition and pairing of 3d electrons in iron. The local moment of iron atom after high spin-low spin transition is small but finite up to 180 GPa. Carnegie Institution for Science, Washington, D.C. USA.

  14. Arsenic incorporation into FeS 2 pyrite and its influence on dissolution: A DFT study

    NASA Astrophysics Data System (ADS)

    Blanchard, Marc; Alfredsson, Maria; Brodholt, John; Wright, Kate; Catlow, C. Richard A.

    2007-02-01

    FeS 2 pyrite can incorporate large amounts of arsenic (up to ca. 10 wt%) and hence has a strong impact on the mobility of this toxic metalloid. Focussing on the lowest arsenic concentrations for which the incorporation occurs in solid solution, the substitution mechanisms involved have been investigated by assuming simple incorporation reactions in both oxidising and reducing conditions. The solution energies were calculated by Density Functional Theory (DFT) calculations and we predict that the formation of AsS dianion groups is the most energetically favourable mechanism. The results also suggest that the presence of arsenic will accelerate the dissolution and thus the generation of acid drainage, when the crystal dissolves in oxidising conditions.

  15. Vibrational spectroscopic and non-linear optical activity studies on nicotinanilide : A DFT approach

    SciTech Connect

    Premkumar, S.; Mathavan, T.; Dhas, M. Kumara; Benial, A. Milton Franklin; Jawahar, A.

    2015-06-24

    The molecular structure of nicotinanilide was optimized by the DFT/B3LYP method with cc-pVTZ basis set using Gaussian 09 program. The first order hyperpolarizability of the molecule was calculated, which exhibits the higher nonlinear optical activity. The natural bond orbital analysis confirms the presence of intramolecular charge transfer and the hydrogen bonding interaction, which leads to the higher nonlinear optical activity of the molecule. The Frontier molecular orbitals analysis of the molecule shows that the delocalization of electron density occurs within the molecule. The lower energy gap indicates that the hydrogen bond formation between the charged species. The vibrational frequencies were calculated and assigned on the basis of potential energy distribution calculation using the VEDA 4.0 program and the corresponding vibrational spectra were simulated. Hence, the nicotinanilide molecule can be a good candidate for second-order NLO material.

  16. Radical cations from dipyridinium derivatives: a combined EPR and DFT study.

    PubMed

    Stipa, Pierluigi

    2006-06-01

    The monoelectronic reduction of 1,1'-dimethyl-2,2'-dicyano-4,4'-bipyridinium (DCMV++) bis-methylsulphate, conducted directly in the cavity of the electron paramagnetic resonance (EPR) spectrometer at room temperature and in DMSO solution, gave the signal of the corresponding radical cation (DCMV.+) whose interpretation has been carried out with the aid of density functional theory (DFT) calculations run at different levels. The model chemistries considered yielded in general hyperfine coupling constants (hfcc) in good agreement with the experimental ones, except for the methyl protons directly bonded to the pyridinium nitrogens. The use of various computational methods accounting for solvent-solute interactions did not give significant improvements with respect to the gas phase results, while the geometry optimizations performed showed that the two pyridinium rings are coplanar in the radical cation but staggered in the parent dication, although the corresponding energy barrier involved is very low.

  17. Microwave assisted synthesis, antifungal activity, and DFT study of some novel triazolinone derivatives.

    PubMed

    Sun, Na-Bo; Jin, Jian-Zhong; He, Fang-Yue

    2015-01-01

    A series of some novel 1,2,4-triazol-5(4H)-one derivatives were designed and synthesized under microwave irradiation via multistep reaction. The structures of 1,2,4-triazoles were confirmed by (1)H NMR, MS, FTIR, and elemental analysis. The antifungal activities of 1,2,4-triazoles were determined. The antifungal activity results indicated that the compounds 5c, 5f, and 5h exhibited good activity against Pythium ultimum, and the compounds 5b and 5c displayed good activity against Corynespora cassiicola. Theoretical calculation of the compound 5c was carried out with B3LYP/6-31G (d). The full geometry optimization was carried out using 6-31G(d) basis set, and the frontier orbital energy and electrostatic potential were discussed, and the structure-activity relationship was also studied. PMID:25861651

  18. EPR and DFT Study of the Polycyclic Aromatic Radical Cations from Friedel-Crafts Alkylation Reactions

    NASA Astrophysics Data System (ADS)

    Wang, Tao; Wu, An-an; Gao, Li-guo; Wang, Han-qing

    2009-02-01

    Electron paramagnetic resonance and electron-nuclear double resonance methods were used to study the polycyclic aromatic radical cations produced in a Friedel-Crafts alkylating system, with m-xylene, or p-xylene and alkyl chloride. The results indicate that the observed electron paramagnetic resonance spectra are due to polycyclic aromatic radicals formed from the parent hydrocarbons. It is suggested that benzyl halides produced in the Friedel-Crafts alkylation reactions undergo Scholl self-condensation to give polycyclic aromatic hydrocarbons, which are converted into corresponding polycyclic aromatic radical cations in the presence of AlCl3. The identification of observed two radicals 2,6-dimethylanthracene and 1,4,5,8-tetramethylanthracene were supported by density functional theory calculations using the B3LYP/6-31G(d,p)//B3LYP/6-31G(d) approach. The theoretical coupling constants support the experimental assignment of the observed radicals.

  19. Spin-forbidden ligand binding to the ferrous-heme group: ab initio and DFT studies.

    PubMed

    Strickland, Nikki; Harvey, Jeremy N

    2007-02-01

    The potential energy surfaces (PESs) and associated energy barriers that characterize the spin-forbidden recombination reactions of the gas-phase ferrous deoxy-heme group with CO, NO, and H2O ligands have been calculated using density functional theory (DFT). The bond energy for binding of O2 has also been calculated. Extensive large basis set CCSD(T) calculations on two small models of the heme group have been used to calibrate the accuracy of different DFT functionals for treating these systems. Pure functionals are shown to overestimate the stability of the low-spin forms of the deoxy-heme model, and to overestimate the binding energy of H2O and CO, whereas hybrid functionals such as B3PW91 and B3LYP yield accurate results. Accordingly, the latter functionals have been used to explore the PESs for binding. CO binding is found to involve a significant barrier of ca. 3 kcal mol-1 due to the need to change from the deoxy-heme quintet ground state to the bound singlet state. Binding of water does not involve a barrier, but the resulting bond is weak and may be further weakened in the protein environment, which should explain why water binding is not usually observed in heme proteins such as myoglobin. NO binding involves a low barrier, which is consistent with observed rapid geminate recombination. The calculated bond energies are in good agreement with previous reported values and in fair agreement with experiment for CO and O2. The value for NO is significantly lower than the experimentally derived bond energy, suggesting that B3LYP is less accurate in this case.

  20. NO Chemisorption on Cu/SSZ-13: a Comparative Study from Infrared Spectroscopy and DFT Calculations

    SciTech Connect

    Zhang, Renqin; McEwen, Jean-Sabin; Kollar, Marton; Gao, Feng; Wang, Yilin; Szanyi, Janos; Peden, Charles HF

    2014-11-07

    The locations and energies of Cu ions in a Cu/SSZ-13 zeolite catalyst were investigated by density functional theory (DFT) calculations. For 'naked' Cu2+ ions (i.e., Cu2+ ions with no ligands in their coordination spheres other than zeolite lattice oxygen atoms), the more energetically favorable sites are within a 6-membered ring. However, with the presence of various adsorbates, the energy difference between 6- and 8-membered ring locations greatly diminishes. Specifically, Cu2+ ions are substantially stabilized by -OH ligands (as [CuII(OH)]+), making the extra-framework sites in an 8-membered ring energetically more favorable than 6-membered ring sites. Under fully dehydrated high vacuum conditions with different Si/Al and Cu/Al ratios, three chemisorbed NO species coexist upon exposure of NO to Cu/SSZ-13: NO+, Cu2+-NO and Cu+-NO. The relative signal intensities for these bands vary greatly with Si/Al ratios. The vibrational frequency of chemisorbed NO was found to be very sensitive to the location of Cu2+ ions. On the one hand, with the aid from DFT calculations, the nature for these vibrations can be assigned in detail. On the other hand, the relative intensities for various Cu2+-NO species provide a good measure of the nature of Cu2+ ions as functions of Si/Al and Cu/Al ratios and the presence of humidity. These new findings cast doubt on the generally accepted proposal that only Cu2+ ions located in 6-membered rings are catalytically active for NH3-SCR.

  1. Theoretical study of the ammonia nitridation rate on an Fe (100) surface: A combined density functional theory and kinetic Monte Carlo study

    NASA Astrophysics Data System (ADS)

    Yeo, Sang Chul; Lo, Yu Chieh; Li, Ju; Lee, Hyuck Mo

    2014-10-01

    Ammonia (NH3) nitridation on an Fe surface was studied by combining density functional theory (DFT) and kinetic Monte Carlo (kMC) calculations. A DFT calculation was performed to obtain the energy barriers (Eb) of the relevant elementary processes. The full mechanism of the exact reaction path was divided into five steps (adsorption, dissociation, surface migration, penetration, and diffusion) on an Fe (100) surface pre-covered with nitrogen. The energy barrier (Eb) depended on the N surface coverage. The DFT results were subsequently employed as a database for the kMC simulations. We then evaluated the NH3 nitridation rate on the N pre-covered Fe surface. To determine the conditions necessary for a rapid NH3 nitridation rate, the eight reaction events were considered in the kMC simulations: adsorption, desorption, dissociation, reverse dissociation, surface migration, penetration, reverse penetration, and diffusion. This study provides a real-time-scale simulation of NH3 nitridation influenced by nitrogen surface coverage that allowed us to theoretically determine a nitrogen coverage (0.56 ML) suitable for rapid NH3 nitridation. In this way, we were able to reveal the coverage dependence of the nitridation reaction using the combined DFT and kMC simulations.

  2. Theoretical study of the ammonia nitridation rate on an Fe (100) surface: A combined density functional theory and kinetic Monte Carlo study

    SciTech Connect

    Yeo, Sang Chul; Lee, Hyuck Mo; Lo, Yu Chieh; Li, Ju

    2014-10-07

    Ammonia (NH{sub 3}) nitridation on an Fe surface was studied by combining density functional theory (DFT) and kinetic Monte Carlo (kMC) calculations. A DFT calculation was performed to obtain the energy barriers (E{sub b}) of the relevant elementary processes. The full mechanism of the exact reaction path was divided into five steps (adsorption, dissociation, surface migration, penetration, and diffusion) on an Fe (100) surface pre-covered with nitrogen. The energy barrier (E{sub b}) depended on the N surface coverage. The DFT results were subsequently employed as a database for the kMC simulations. We then evaluated the NH{sub 3} nitridation rate on the N pre-covered Fe surface. To determine the conditions necessary for a rapid NH{sub 3} nitridation rate, the eight reaction events were considered in the kMC simulations: adsorption, desorption, dissociation, reverse dissociation, surface migration, penetration, reverse penetration, and diffusion. This study provides a real-time-scale simulation of NH{sub 3} nitridation influenced by nitrogen surface coverage that allowed us to theoretically determine a nitrogen coverage (0.56 ML) suitable for rapid NH{sub 3} nitridation. In this way, we were able to reveal the coverage dependence of the nitridation reaction using the combined DFT and kMC simulations.

  3. Theoretical Study of a Spherical Plasma Focus

    NASA Astrophysics Data System (ADS)

    Ay, Yasar

    A theoretical model is developed for two concentric electrodes spherical plasma focus device in order to investigate the plasma sheath dynamics, radiative emission, and the ion properties. The work focuses on the model development of the plasma sheath dynamics and its validation, followed by studying of the radiation effects and the beam-ion properties in such unique geometry as a pulsed source for neutrons, soft and hard x-rays, and electron and ion beams. Chapter 1 is an introduction on fusion systems including plasma focus. Chapter 2 is an extensive literature survey on plasma focus modeling and experiments including the various radiations and their mechanism. Chapter 3 details modeling and validation of the plasma sheath dynamics model with comparison between hydrogen, deuterium, tritium and deuterium-tritium mixture for the production of pulsed neutrons. Chapter 4 is a study of the radiative phase, in which neutron yield is investigated, as well as the predicted beam-ion properties. Chapter 5 summarizes and discusses the results. Chapter 6 provides concluding remarks and proposed future works. The phases of the developed model are the rundown phase I, rundown phase II, the reflected phase and a radiative phase. The rundown phase I starts immediately after the completion of the gas breakdown and ends when the current sheath reaches the equator point of the spherical shape. Then immediately followed by rundown phase II to start and it ends when the shock front hits the axis, which is the beginning of the reflected shock phase. Reflected shock front moves towards the incoming current sheath and meets it which is both the end of the reflected shock phase and the beginning of the radiative phase. After the reflected shock front and the current sheath meet, the current sheath continues to move radially inward by compressing the produced plasma column until it reaches the axis. Since the discharge current contains important information about the plasma dynamic

  4. Study of molecular structure, vibrational, electronic and NMR spectra of oncocalyxone A using DFT and quantum chemical calculations

    NASA Astrophysics Data System (ADS)

    Joshi, Bhawani Datt; Srivastava, Anubha; Honorato, Sara Braga; Tandon, Poonam; Pessoa, Otília Deusdênia Loiola; Fechine, Pierre Basílio Almeida; Ayala, Alejandro Pedro

    2013-09-01

    Oncocalyxone A (C17H18O5) is the major secondary metabolite isolated from ethanol extract from the heartwood of Auxemma oncocalyx Taub popularly known as “pau branco”. Oncocalyxone A (Onco A) has many pharmaceutical uses such as: antitumor, analgesic, antioxidant and causative of inhibition of platelet activation. We have performed the optimized geometry, total energy, conformational study, molecular electrostatic potential mapping, frontier orbital energy gap and vibrational frequencies of Onco A employing ab initio Hartree-Fock (HF) and density functional theory (DFT/B3LYP) method with 6-311++G(d, p) basis set. Stability of the molecule arising from hyperconjugative interactions and/or charge delocalization has been analyzed using natural bond orbital (NBO) analysis. UV-vis spectrum of the compound was recorded in DMSO and MeOH solvent. The TD-DFT calculations have been performed to explore the influence of electronic absorption spectra in the gas phase, as well as in solution environment using IEF-PCM and 6-31G basis set. The 13C NMR chemical shifts have been calculated with the B3LYP/6-311++G(d, p) basis set and compared with the experimental values. These methods have been used as tools for structural characterization of Onco A.

  5. Hybrid DFT Functional-Based Static and Molecular Dynamics Studies of Excess Electron in Liquid Ethylene Carbonate

    SciTech Connect

    Yu, J. M.; Balbuena, P. B.; Budzien, J. L.; Leung, Kevin

    2011-02-22

    We applied static and dynamic hybrid functional density functional theory (DFT) calculations to study the interactions of one and two excess electrons with ethylene carbonate (EC) liquid and clusters. Optimal structures of (EC)n and (EC)n- clusters devoid of Li+ ions, n = 1–6, were obtained. The excess electron was found to be localized on a single EC in all cases, and the EC dimeric radical anion exhibits a reduced barrier associated with the breaking of the ethylene carbon–oxygen covalent bond compared to EC-. In ab initio molecular dynamics (AIMD) simulations of EC- solvated in liquid EC, large fluctuations in the carbonyl carbon–oxygen bond lengths were observed. AIMD simulations of a two-electron attack on EC in EC liquid and on Li metal surfaces yielded products similar to those predicted using nonhybrid DFT functionals, except that CO release did not occur for all attempted initial configurations in the liquid state.

  6. Electron transport and nonlinear optical properties of substituted aryldimesityl boranes: a DFT study.

    PubMed

    Pandith, Altaf Hussain; Islam, Nasarul

    2014-01-01

    A comprehensive theoretical study was carried out on a series of aryldimesityl borane (DMB) derivatives using Density Functional theory. Optimized geometries and electronic parameters like electron affinity, reorganization energy, frontiers molecular contours, polarizability and hyperpolarizability have been calculated by employing B3PW91/6-311++G (d, p) level of theory. Our results show that the Hammett function and geometrical parameters correlates well with the reorganization energies and hyperpolarizability for the series of DMB derivatives studied in this work. The orbital energy study reveals that the electron releasing substituents increase the LUMO energies and electron withdrawing substituents decrease the LUMO energies, reflecting the electron transport character of aryldimesityl borane derivatives. From frontier molecular orbitals diagram it is evident that mesityl rings act as the donor, while the phenylene and Boron atom appear as acceptors in these systems. The calculated hyperpolarizability of secondary amine derivative of DMB is 40 times higher than DMB (1). The electronic excitation contributions to the hyperpolarizability studied by using TDDFT calculation shows that hyperpolarizability correlates well with dipole moment in ground and excited state and excitation energy in terms of the two-level model. Thus the results of these calculations can be helpful in designing the DMB derivatives for efficient electron transport and nonlinear optical material by appropriate substitution with electron releasing or withdrawing substituents on phenyl ring of DMB system.

  7. Theoretical Studies in Elementary Particle Physics

    SciTech Connect

    Collins, John C.; Roiban, Radu S

    2013-04-01

    This final report summarizes work at Penn State University from June 1, 1990 to April 30, 2012. The work was in theoretical elementary particle physics. Many new results in perturbative QCD, in string theory, and in related areas were obtained, with a substantial impact on the experimental program.

  8. Study on conformational stability, molecular structure, vibrational spectra, NBO, TD-DFT, HOMO and LUMO analysis of 3,5-dinitrosalicylic acid by DFT techniques.

    PubMed

    Sebastian, S; Sylvestre, S; Jayabharathi, J; Ayyapan, S; Amalanathan, M; Oudayakumar, K; Herman, Ignatius A

    2015-02-01

    In this work we analyzed the vibrational spectra of 3,5-dinitrosalicylic acid (3,5DNSA) molecule. The total energy of eight possible conformers can be calculated by Density Functional Theory with 6-31G(d,p) as basis set to find the most stable conformer. Computational result identify the most stable conformer of 3,5DNSA is C6. The assignments of the vibrational spectra have been carried out by computing Total Energy Distribution (TED). The molecular geometry, second order perturbation energies and Electron Density (ED) transfer from filled lone pairs of Lewis base to unfilled Lewis acid sites for 3,5-DNSA molecular analyzed on the basis of Natural Bond Orbital (NBO) analysis. The formation of inter and intramolecular hydrogen bonding between OH and COOH group gave the evidence for the formation of dimer formation for 3,5-DNSA molecule. The energy and oscillator strength calculated by Time-Dependent Density Functional Theory (TD-DFT) complements with the experimental findings. The simulated spectra satisfactorily coincides with the experimental spectra.

  9. Molecular structure, hydrogen-bonding, chemical reactivity and first hyperpolarizability analysis of a new synthesized 1,9-bis(2-cyano-2-ethoxycarbonylvinyl)-5-(2-nitrophenyl)-dipyrromethane: Experimental and theoretical (DFT and QTAIM) approach

    NASA Astrophysics Data System (ADS)

    Tiwari, R. K.; Kumar, Amit; Rawat, Poonam; Singh, R. N.

    2013-11-01

    In present experimental and theoretical studies on a synthesized α-cyanovinyl containing meso-substituted dipyrromethane: 1,9-bis(2-cyano-2-ethoxycarbonylvinyl)-5-(2-nitrophenyl)-dipyrromethane (3) molecular structure, hydrogen-bonding, chemical reactivity and first hyperpolarizability have been investigated. The molecular structure evaluation and spectral analysis of (3) have been done using B3LYP functional and 6-31G(d,p) as basis set. Thermodynamic parameters (H, G, S) of all the reactants and products have been used to determine nature of the chemical reaction. The observed chemical shift at 5.857 ppm in 1H NMR and at 41.39 ppm in 13C NMR designates formation of dipyrromethane molecule. The oscillatory strength (f) and λmax of electronic excitations have been calculated by TD-DFT and shows their nature as π → π*. Natural bond orbitals (NBOs) analysis has been carried out to investigate the intramolecular conjugative/hyperconjugative interactions within molecule and their second order stabilization energy (E(2)). The result of hydrogen bonding N1sbnd H39···N9/N17sbnd H49···N25 is obvious in 1H NMR, FT-IR and NBO analysis as down field chemical shift, vibrational red shift and π1(C8sbnd N9) → σ*(N1sbnd H39)/π1(C24sbnd N25) → σ*(N17sbnd H49) interactions, respectively. To investigate the strength and nature of H-bonding, topological parameters at bond critical points (BCPs) have been analyzed by 'Quantum theory of Atoms in molecules' (QTAIMs). Local reactivity descriptors as Fukui functions fk+,fk-, local softnesses sk+,sk- and electrophilicity indices ωk+,ωk- have been calculated to find out the reactive sites within molecule. The first hyperpolarizability (β0) of the title compound calculated as 20.75 × 10-30 esu expects its suitability for NLO response.

  10. An experimental and theoretical investigation of free Oxazole in conjunction with the DFT analysis of Oxazole ⋯(H2O)n complexes

    NASA Astrophysics Data System (ADS)

    Yurdakul, Şenay; Badoğlu, Serdar; Özkurt, Lütfiye

    2016-06-01

    The mid-IR spectrum of Oxazole (Oxa) is recorded. This spectrum is interpreted with the help of B3LYP/6-311 ++G(d,p) calculations and potential energy distribution (PED) analysis. The experimental spectrum is concordant with the theoretical data. Geometrical parameters and the atomic charges are also theoretically obtained and presented. Solvent effects on the geometrical parameters, vibrational frequencies, and electronic properties of Oxa are analyzed theoretically in chloroform, ethanol, and water. Besides, hydrogen bonded Oxa ⋯(H2O)n (n = 1, 2,…, 10) complexes are investigated within the PCM solvation model. It is found that the interaction energies in Oxa ⋯(H2O)n complexes are influenced by the number of water molecules, and by the arrangement of water molecules.

  11. Electronic and geometrical properties of monoatomic and diatomic 2D honeycomb lattices. A DFT study

    NASA Astrophysics Data System (ADS)

    Rojas, Ángela; Rey, Rafael; Fonseca, Karen; Grupo de Óptica e Información Cuántica Team

    Since the discovery of graphene by Geim and Novoselov at 2004, several analogous systems have been theoretically and experimentally studied, due to their technological interest. Both monoatomic lattices, such as silicine and germanene, and diatomic lattices (h-GaAs and h-GaN) have been studied. Using Density Functional Theory we obtain and confirm the chemical stability of these hexagonal 2D systems through the total energy curves as a function of interatomic distance. Unlike graphene, silicine and germanene, gapless materials, h-GaAs and h-GaN exhibit electronic gaps, different from that of the bulk, which could be interesting for the industry. On the other hand, the ab initio band structure calculations for graphene, silicene and germanene show a non-circular cross section around K points, at variance with the prediction of usual Tight-binding models. In fact, we have found that Dirac cones display a dihedral group symmetry. This implies that Fermi speed can change up to 30 % due to the orientation of the wave vector, for both electrons and holes. Traditional analytic studies use the Dirac equation for the electron dynamics at low energies. However, this equation assumes an isotropic, homogeneous and uniform space. Authors would like to thank the División de Investigación Sede Bogotá for their financial support at Universidad Nacional de Colombia. A. M. Rojas-Cuervo would also like to thank the Colciencias, Colombia.

  12. Metric for the measurement of the quality of complex beams: a theoretical study.

    PubMed

    Kaim, Sergiy; Lumeau, Julien; Smirnov, Vadim; Zeldovich, Boris; Glebov, Leonid

    2015-04-01

    We present a theoretical study of various definitions of laser beam width in a given cross section. Quality of the beam is characterized by dimensionless beam propagation products (BPPs) Δx·Δθ(x)/λ, which are different for the 21 definitions presented, but are close to 1. Six particular beams are studied in detail. In the process, we had to review the properties for the Fourier transform of various modifications and the relationships between them: physical Fourier transform (PFT), mathematical Fourier transform (MFT), and discrete Fourier transform (DFT). We found an axially symmetric self-MFT function, which may be useful for descriptions of diffraction-quality beams. In the appendices, we illustrate the thesis "the Fourier transform lives on the singularities of the original." PMID:26366763

  13. SbCl3-catalyzed one-pot synthesis of 4,4′-diaminotriarylmethanes under solvent-free conditions: Synthesis, characterization, and DFT studies

    PubMed Central

    2011-01-01

    Summary A simple, efficient, and mild procedure for a solvent-free one-step synthesis of various 4,4′-diaminotriarylmethane derivatives in the presence of antimony trichloride as catalyst is described. Triarylmethane derivatives were prepared in good to excellent yields and characterized by elemental analysis, FTIR, 1H and 13C NMR spectroscopic techniques. The structural and vibrational analysis were investigated by performing theoretical calculations at the HF and DFT levels of theory by standard 6-31G*, 6-31G*/B3LYP, and B3LYP/cc-pVDZ methods and good agreement was obtained between experimental and theoretical results. PMID:21445373

  14. Conformational, electronic and antioxidant properties of lucidone, linderone and methyllinderone: DFT, QTAIM and NBO studies

    NASA Astrophysics Data System (ADS)

    Kabanda, Mwadham M.; Tan Tran, Van; Seema, Kamogelo M.; Serobatse, Kemoabetswe R. N.; Tsiepe, Tshepiso J.; Tran, Quoc Tri; Ebenso, Eno E.

    2015-04-01

    Theoretical studies on lucidone, linderone and methyllinderone were performed to investigate factors that contribute to structural stability and to elucidate the antioxidant properties and mechanisms. The study was performed in different media utilising the density functional theory with different functionals and the 6-311+ G(d,p) basis set. The antioxidant activity has been considered through the electron transfer and metal chelation mechanisms. The results show that the stability of the tautomers and conformers is due to the presence of several intramolecular hydrogen bonds. The ionisation potential values suggest that the antiradical activity increases with the increase in the number of OCH3 groups substituted on the cyclopentene-1,3-dione ring. In vacuo, the spin density of the Fe(II) cation upon ligand coordination decreases to 3.0-3.5, whereas the ligand spin density approaches 1, indicating that it is oxidised to a radical cation. The metal ion affinity (MIA) is influenced by the position and number of OCH3 substituted on the acylcyclopentene-1,3-dione ring. A very favourable MIA, in vacuo, is obtained when Fe(II) is chelated between the sp2 O and sp3 O atoms. An estimation of MIA in an aqueous solution shows a remarkable decrease with respect to the results in vacuo.

  15. Interaction of water molecules with hexagonal 2D systems. A DFT study

    NASA Astrophysics Data System (ADS)

    Rojas, Ángela; Rey, Rafael

    Over the years water sources have been contaminated with many chemical agents, becoming issues that affect health of the world population. The advances of the nanoscience and nanotechnology in the development new materials constitute an alternative for design molecular filters with great efficiencies and low cost for water treatment and purification. In the nanoscale, the process of filtration or separation of inorganic and organic pollutants from water requires to study interactions of these atoms or molecules with different nano-materials. Specifically, it is necessary to understand the role of these interactions in physical and chemical properties of the nano-materials. In this work, the main interest is to do a theoretical study of interaction between water molecules and 2D graphene-like systems, such as silicene (h-Si) or germanene (h-Ge). Using Density Functional Theory we calculate total energy curves as function of separation between of water molecules and 2D systems. Different spatial configurations of water molecules relative to 2D systems are considered. Structural relaxation effects and changes of electronic charge density also are reported. Universidad Nacional de Colombia.

  16. Mesomorphic, micro-Raman and DFT studies of new calamitic liquid crystals; methyl 4-[4-(4-alkoxy benzoyloxy)benzylideneamino]benzoates

    NASA Astrophysics Data System (ADS)

    Nandi, Rajib; Singh, Hemant Kumar; Singh, Sachin Kumar; Singh, Bachcha; Singh, Ranjan K.

    2014-07-01

    The mesomorphic properties of newly synthesized homologous series of calamitic liquid crystals; methyl 4-[4-(4-alkoxy benzoyloxy)benzylideneamino]benzoates, H2n+1CnOC6H4COOC6H4C(H)dbnd N C6H4COOCH3; n = 6, 8, 10, 12, 14, 16 (MABBAB-n) containing ester and Schiff base groups as linker have been studied by temperature dependent micro-Raman study, differential scanning calorimetry (DSC) and polarizing optical microscopy (POM). All members of this series exhibit enantiotropic smectic A (SmA) mesophase with oily streak and focal conic textures. Analyses of Raman marker bands of phenyl rings, Schiff base and ester groups of MABBAB-10 confirm the phase transitions. The Raman study also gives an evidence of breaking of weak intermolecular hydrogen bonds associated with ester groups and formation of new hydrogen bonds through Cdbnd N bond at Cr → SmA phase transition. The monomer and dimer were optimized and vibrational assignment of MABBAB-10 was also done with density functional theoretical (DFT) technique to understand the experimental results.

  17. Molecular structure of mercury(II) thiocyanate complexes based on DFT calculations and experimental UV-electron spectroscopy and Raman studies

    NASA Astrophysics Data System (ADS)

    Elijošiutė, Erika; Eicher-Lorka, Olegas; Griškonis, Egidijus; Matulaitienė, Ieva; Jankūnaitė, Dalia; Denafas, Gintaras

    2013-11-01

    In this work, we report a combined experimental and theoretical study on molecular structure, vibrational and electronic spectra of [Hg(SCN)n]2-n complexes (where n = 2, 3, 4) in the aqueous solution. Molecular modeling of the mercury(II) complexes were done by the density functional theory (DFT) method using B3LYP functional with Stuttgart relativistic ECP 78MWB basis set for Hg and 6-311++G(d,p) basis set for all other atoms. The effect of different solvation models with explicit (ligand) and/or implicit water environment upon its geometry, vibrational frequencies and UV spectrum have been studied. The influence of H2O/D2O exchange on the experimental and calculated vibrational frequencies of studied complexes has been established. The double-peak character of the νHgsbnd S vibrational mode of the all analyzed mercury complexes and νCtbnd N mode of [Hg(SCN)3H2O]- complex, respectively, were proposed here for the first time. The formation of four-coordinated Hg(II) complexes with thiocyanate and (or) water ligands was verified.

  18. Theoretical and experimental studies of reentry plasmas

    NASA Technical Reports Server (NTRS)

    Dunn, M. G.; Kang, S.

    1973-01-01

    A viscous shock-layer analysis was developed and used to calculate nonequilibrium-flow species distributions in the plasma layer of the RAM vehicle. The theoretical electron-density results obtained are in good agreement with those measured in flight. A circular-aperture flush-mounted antenna was used to obtain a comparison between theoretical and experimental antenna admittance in the presence of ionized boundary layers of low collision frequency. The electron-temperature and electron-density distributions in the boundary layer were independently measured. The antenna admittance was measured using a four-probe microwave reflectometer and these measured values were found to be in good agreement with those predicted. Measurements were also performed with another type of circular-aperture antenna and good agreement was obtained between the calculations and the experimental results. A theoretical analysis has been completed which permits calculation of the nonequilibrium, viscous shock-layer flow field for a sphere-cone body. Results are presented for two different bodies at several different altitudes illustrating the influences of bluntness and chemical nonequilibrium on several gas dynamic parameters of interest. Plane-wave transmission coefficients were calculated for an approximate space-shuttle body using a typical trajectory.

  19. Theoretical studies of Bose-Einstein condensates

    NASA Astrophysics Data System (ADS)

    Das, Kunal Kashyap

    This thesis is a theoretical study of Bose-Einstein Condensation (BEC) in harmonically-trapped, weakly-interacting dilute gases. The motivation for this study is the experimental realization of BEC in trapped alkali gases since 1995. The weak inter-particle interactions and diluteness of the gases allow for a fairly accurate mean-field treatment and justifies a discrete quasi-particle description as we use in this work. This thesis considers three specific topics in the rapidly growing field of BEC theory: (i) interference effects in BEC, (ii) interaction-induced energy shifts and damping of excitations of condensates and (iii) the properties of highly anisotropic condensates. The results are summarized here: i. We show that if two multiply occupied boson modes are in eigenstates of the Hermitian relative phase operator, then the visibility of fringes formed by the interference between the modes is necessarily less than unity. For large total occupation numbers the visibility V ≤ pi/4. States with definite relative phase and unit visibility do exist. They are related to coherent states and are not orthogonal (not eigenstates of a Hermitian phase operator). This visibility limitation may make it possible to investigate experimentally the physical role of the relative phase eigenstates in interference measurements on BEC. ii. We evaluate analytically the asymptotic energy shifts of the high energy Bogoliubov quasi-particle modes. In spherical geometry, those modes display a 1/ n dependence on their number of radial nodes n but only a weak dependence on their angular momenta l. We obtain similar results for cylindrical geometry. We derive an implicit equation for the widths or decay rates gamma of the modes from an assumption of exponential decay. We use the equation to do a detailed numerical study of the trends in the behavior of the widths as a function of temperature, energy, particle number and scattering lengths. In particular, we find that widths due to

  20. An analytical study of the improved nonlinear tolerance of DFT-spread OFDM and its unitary-spread OFDM generalization.

    PubMed

    Shulkind, Gal; Nazarathy, Moshe

    2012-11-01

    DFT-spread (DFT-S) coherent optical OFDM was numerically and experimentally shown to provide improved nonlinear tolerance over an optically amplified dispersion uncompensated fiber link, relative to both conventional coherent OFDM and single-carrier transmission. Here we provide an analytic model rigorously accounting for this numerical result and precisely predicting the optimal bandwidth per DFT-S sub-band (or equivalently the optimal number of sub-bands per optical channel) required in order to maximize the link non-linear tolerance (NLT). The NLT advantage of DFT-S OFDM is traced to the particular statistical dependency introduced among the OFDM sub-carriers by means of the DFT spreading operation. We further extend DFT-S to a unitary-spread generalized modulation format which includes as special cases the DFT-S scheme as well as a new format which we refer to as wavelet-spread (WAV-S) OFDM, replacing the spreading DFTs by Hadamard matrices which have elements +/-1 hence are multiplier-free. The extra complexity incurred in the spreading operation is almost negligible, however the performance improvement with WAV-S relative to plain OFDM is more modest than that achieved by DFT-S, which remains the preferred format for nonlinear tolerance improvement, outperforming both plain OFDM and single-carrier schemes.

  1. Structural, DFT and biological studies on Cr(III) complexes of semi and thiosemicarbazide ligands derived from diketo hydrazide

    NASA Astrophysics Data System (ADS)

    Yousef, T. A.; Alduaij, O. K.; Ahmed, Sara F.; Abu El-Reash, G. M.; El-Gammal, O. A.

    2016-12-01

    Three ligands have been prepared by addition ethanolic suspension of 2-hydrazino-2-oxo-N-phenyl-acetamide to phenyl isocyanate (H2PAPS), phenyl isothiocyanate (H2PAPT) and benzoyl isothiocyanate (H2PABT). The Cr(III) chloride complexes were prepared and characterized by conventional techniques. The data confirmed that the complexes have the following formulaes, [Cr(H2PAPS)Cl3], [Cr(HPAPT)Cl2(H2O)2] and [Cr(HPABT)Cl2(H2O)]. The IR spectra of complexes shows that H2PAPS behaves as neutral tridentate via both CO of hydrazide moiety and Cdbnd N(azomethine) due to enolization of CO isocyanate without deprotonation. H2PAPT suggests the coordination as mononegative bidentate via both CO of hydrazide moiety in keto and deprotonated enolic oxygen atoms. H2PABT act as mononegative tridentate via carbonyl oxygen (Cdbnd O)3, the deprotonated enolic oxygen atom (dbnd Csbnd Osbnd)1 and NH1 groups. The experimental IR data of ligands are compared with those obtained theoretically from DFT calculations. Also, the bond lengths, bond angles, HOMO, LUMO and dipole moments have been calculated. The calculated HOMO-LUMO energy gap reveals that charge transfer occurs within the ligand molecules. The calculated values of binding energies indicates the higher stability of metal complexes than of ligands. Also, the kinetic and thermodynamic parameters for the different thermal degradation steps of the complexes were determined by Coats-Redfern and Horowitz-Metzger methods.

  2. Multinuclear Solid-State NMR and DFT Studies on Phosphanido-Bridged Diplatinum Complexes.

    PubMed

    Mastrorilli, Piero; Todisco, Stefano; Bagno, Alessandro; Gallo, Vito; Latronico, Mario; Fortuño, Consuelo; Gudat, Dietrich

    2015-06-15

    Multinuclear ((31)P, (195)Pt, (19)F) solid-state NMR experiments on (nBu4N)2[(C6F5)2Pt(μ-PPh2)2Pt(C6F5)2] (1), [(C6F5)2Pt(μ-PPh2)2Pt(C6F5)2](Pt-Pt) (2), and cis-Pt(C6F5)2(PHPh2)2 (3) were carried out under cross-polarization/magic-angle-spinning conditions or with the cross-polarization/Carr-Purcell Meiboom-Gill pulse sequence. Analysis of the principal components of the (31)P and (195)Pt chemical shift (CS) tensors of 1 and 2 reveals that the variations observed comparing the isotropic chemical shifts of 1 and 2, commonly referred to as "ring effect", are mainly due to changes in the principal components oriented along the direction perpendicular to the Pt2P2 plane. DFT calculations of (31)P and (195)Pt CS tensors confirmed the tensor orientation proposed from experimental data and symmetry arguments and revealed that the different values of the isotropic shieldings stem from differences in the paramagnetic and spin-orbit contributions.

  3. Relaxations of fluorouracil tautomers by decorations of fullerene-like SiCs: DFT studies

    NASA Astrophysics Data System (ADS)

    Kouchaki, Alireza; Gülseren, Oğuz; Hadipour, Nasser; Mirzaei, Mahmoud

    2016-06-01

    Decorations of silicon carbide (SiC) fullerene-like nanoparticles by fluorouracil (FU) and its tautomers are investigated through density functional theory (DFT) calculations. Two models of fullerene-like particles including Si12C8 and Si8C12 are constructed to be counterparts of decorated hybrid structures, FU@Si12C8 and FU@Si8C12, respectively. The initial models including original FU and tautomeric structures and SiC nanoparticles are individually optimized and then combined for further optimizations in the hybrid forms. Covalent bonds are observed for FU@Si12C8 hybrids, whereas non-covalent interactions are seen for FU@Si8C12 ones. The obtained properties indicated that Si12C8 model could be considered as a better counterpart for interactions with FU structures than Si8C12 model. The results also showed significant effects of interactions on the properties of atoms close to the interacting regions in nanoparticles. Finally, the tautomeric structures show different behaviors in interactions with SiC nanoparticles, in which the SiC nanoparticles could be employed to detect the situations of tautomeric processes for FU structures.

  4. Molecular self-assembly in substituted alanine derivatives: XRD, Hirshfeld surfaces and DFT studies

    NASA Astrophysics Data System (ADS)

    Rajalakshmi, Periasamy; Srinivasan, Navaneethakrishnan; Sivaraman, Gandhi; Razak, Ibrahim Abdul; Rosli, Mohd Mustaqim; Krishnakumar, Rajaputi Venkatraman

    2014-06-01

    The molecular assemblage in the crystal structures of three modified chiral amino acids, two of which are isomeric D- and L-pairs boc-L-benzothienylalanine (BLA), boc-D-benzothienylalanine (BDA) and the other boc-D-naphthylalanine (NDA) differing from this pair very slightly in the chemical modification introduced, is accurately described. The aggregation of amino acid molecules is similar in all the crystals and may be described as a twisted double helical ladder in which two complementary long helical chains formed through O-H⋯O hydrogen bonds are interconnected through the characteristic head-to-tail N-H⋯O hydrogen bonds. Thus the molecular aggregation enabled through classical hydrogen bonds may be regarded as a mimic of the characteristic double helical structure of DNA. Also, precise structural information involving these amino acid molecules with lower symmetry exhibiting higher trigonal symmetry in their self-assembly is expected to throw light on the nature and strength of intermolecular interactions and their role in self-assembly of molecular aggregates, which are crucial in developing new or at least supplement existing crystal engineering strategies. Single crystal X-ray analysis and their electronic structures were calculated at the DFT level with a detailed analysis of Hirshfeld surfaces and fingerprint plots facilitating a comparison of intermolecular interactions in building different supramolecular architectures.

  5. Effect of carbon on the Ni catalyzed methane cracking reaction: A DFT study

    NASA Astrophysics Data System (ADS)

    Li, Jingde; Croiset, Eric; Ricardez-Sandoval, Luis

    2014-08-01

    To understand the effects of carbon atoms on the Ni catalyzed methane cracking reactions, methane dissociation on clean, surface-carbon-covered, and subsurface-carbon-accumulated Ni(1 1 1) surfaces were investigated using density functional theory (DFT). The results show that the existence of surface and subsurface C atoms destabilized the adsorption of the surface hydrocarbon species when compared to the clean Ni(1 1 1) surface. The projected density state (PDOS) analysis shows that the deposition of C atoms on and into the Ni surface modified the electronic structure of the Ni surface, and thus reduced the catalytic activity of the bonded Ni atoms. Moreover, it was found that the presence carbon atoms increase the CHx (x = 4-1) species activation barriers especially on the surface carbon covered (1/4 ML) Ni(1 1 1) surface, where CHx (x = 4-1) species encounter highest energy barrier for dissociation due to the electronic deactivation induced by Csbnd Ni bonding and the strong repulsive carbon sbnd CHx interaction. The calculations also show that CHx dissociation barriers are not affected by its neighboring C atom at low surface carbon coverage (1/9 ML). This work can be used to estimate more realistic kinetic parameters for this system.

  6. Mechanism of the Aerobic Homocoupling of Phenylboronic Acid on Au₂₀⁻: A DFT Study.

    PubMed

    Karanjit, Sangita; Ehara, Masahiro; Sakurai, Hidehiro

    2015-11-01

    The mechanism of the gold nanocluster-catalyzed aerobic homocoupling of arylboronic acids has been elucidated by means of DFT calculations with Au20(-) as a model cluster for the Au:[poly(N-vinylpyrrolidin-2-one)] catalyst. We found that oxygen affects the adsorption of phenylboronic acid and, by lowering the energy barrier, a water molecule enhances dissociation of the C-B bond, which is probably the rate-determining step. The key role of oxygen is in activating the surface of the gold cluster by generating Lewis acidic sites for adsorption and activation of the phenylboronic acid, leading to the formation of biphenyl through a superoxo-like species. Moreover, the oxygen adsorbed on the Au nanocluster can act as an oxidant for phenylboronic acid, giving phenol as a byproduct. As shown by NBO analysis, the basic aqueous reaction medium facilitates the reductive elimination process by weakening the Au-C bond, thereby enhancing the formation of biphenyl. The coupling of phenyl and reductive elimination of biphenyl occur at the top or facet site with low-energy-barrier through spillover of phenyl group on Au NC. The present findings are useful for the interpretation or design of other coupling reactions with Au NC.

  7. Hydrogenation of CO2 to formic acid over a Cu-embedded graphene: A DFT study

    NASA Astrophysics Data System (ADS)

    Sirijaraensre, J.; Limtrakul, J.

    2016-02-01

    DFT calculations were used to investigate the properties of the atomic copper embedded in the surface of graphene (Cu/dG) and the catalytic reaction pathway for the CO2 hydrogenation to formic acid (FA). The Cu/dG was active for the adsorption of the hydrogen molecule (H2), and provided a reaction site for the heterolytic cleavage of H2, leading to the formation of Cu-H deposited on a singly hydrogenated vacancy graphene (Cu-H/H-dG). The protonation of CO2 takes place facilely over the generated metal-hydride species (Cu-H). Under the dilution of H2, the catalytic process would be hampered by the formation of copper-formate deposited on the H-dG due mainly to the very high energy demand for the transformation of the copper-formate to FA through the protonation from the H-dG. It was further found that the presence of H2 in the system plays a significant role in producing the FA on the Cu/dG catalyst. The copper-formate species can be converted into formic acid via the heterolytic cleavage of the second hydrogen molecule, yielding the FA and Cu-H species.

  8. Antioxidant behavior of mearnsetin and myricetin flavonoid compounds — A DFT study

    NASA Astrophysics Data System (ADS)

    Sadasivam, K.; Kumaresan, R.

    2011-06-01

    The molecular characteristics of two naturally occurring flavonoid compounds mearnsetin and myricetin have been computed using density functional theory (DFT) approach with B3LYP/6-311G(d,p) level of theory. The computation and analysis of bond dissociation enthalpy magnitudes for all the OH sites for both the compounds clearly denotes the contribution of the B-ring for the antioxidant activity. The analysis has also indicated the higher values of BDE on the C5-OH radical species in both the compounds. The computed vibrational frequency analysis indicates the absence of imaginary frequency in the neutral as well as radical species of both the flavonoid compounds. The ionisation potential (IP) analysis was found to be within the range of the IP of synthetic food additives. In addition, various molecular descriptors such as electron affinity, hardness, softness, electronegativity, electrophilic index have also been calculated and the validity of Koopman's theorem is verified. The plot of frontier molecular orbital and spin density distribution analysis for neutral and the corresponding radical species for both the compounds have been computed and interpreted. The polar nature and their polarizing capacity are well established through the analysis of dipole moment and polarisability magnitudes.

  9. Understanding the cooperative NHC/LA catalysis for stereoselective annulation reactions with homoenolates. A DFT study.

    PubMed

    Domingo, Luis R; Zaragozá, Ramón J; Arnó, Manuel

    2011-10-01

    The role of Ti(Oi-Pr)(4) Lewis acid (LA) in the cooperative N-heterocyclic carbene (NHC)/LA catalyzed addition of enals to enones to yield cis-cyclopentenes has been investigated using DFT methods at the B3LYP/6-31G** computational level. Ti(IV) effectively catalyzes the reaction by formation of a complex with cinnamaldehyde 1, which favors the nucleophilic attack of NHC 5 on 1, and the subsequent proton abstraction to yield the extended Ti(IV)-Breslow intermediate 21. The nature of the metal involved in the LA catalyst plays a relevant role due to the more basic character of NHCs than aldehydes. Thus, strong LAs, such as Zn(OTf)(2), prevent the catalytic behavior of NHCs to form a very stable complex. The subsequent formation of a complex between chalcone 2 and the extended Ti(IV)-Breslow intermediate 21 favors the cis stereoselective C-C bond-formation. Analysis of the structures of Ti(IV)-complex precursors for the cis and trans C-C bond-formation steps allows for an explanation of the unexpected cis stereoselectivity. PMID:21842074

  10. DFT study of the energetic and noncovalent interactions between imidazolium ionic liquids and hydrofluoric acid.

    PubMed

    Velarde, Marco V; Gallo, Marco; Alonso, P A; Miranda, A D; Dominguez, J M

    2015-04-16

    In this work, we evaluated the energetic interactions between imidazolium ionic liquids (ILs) and hydrofluoric acid, as well as the cation-anion interactions in ILs. We used DFT calculations that include dispersion corrections employing the PBE and M06 functionals. We tested 22 ILs, including [C4MIM][PF6], [C4MIM][NTf2], and [C4MIM][CH3COO], obtaining interaction energies in the range of -27 to -13 kcal/mol with the PBE functional. The NCI (noncovalent interaction) index developed by Yang and collaborators ( J. Am. Chem. Soc. 2010 , 132 , 6498 - 6506 ; J. Chem. Theory Comput. 2011 , 7 , 625 - 632 ) also was used for mapping the key noncovalent interactions (hydrogen bonds, van der Waals, and steric repulsions) between the anions and cations of ILs and also for interactions of ILs with hydrofluoric acid (HF). The results obtained show that the anions have a stronger effect with respect to cations in their capacity for interacting with hydrofluoric acid, and the strongest interaction energies occur in systems where the key noncovalent interactions are mainly hydrogen bonds. The [C4MIM][PF6], [C4MIM][NTf2], and [C4MIM][BF4] ionic liquids displayed the weakest cation-anion interactions.

  11. Extraction and DFT study on the complexation of the strontium cation with enniatin B

    NASA Astrophysics Data System (ADS)

    Makrlík, Emanuel; Böhm, Stanislav; Vaňura, Petr; Raich, Ivan

    2014-08-01

    By using extraction experiments and γ-activity measurements, the extraction constant corresponding to the equilibrium Sr2+(aq) + 2A-(aq) + 1(nb) ⇄ 1 · Sr2+(nb) + 2A-(nb) occurring in the two-phase water-nitrobenzene system (A- = picrate, 1 = enniatin B; aq = aqueous phase, nb = nitrobenzene phase) was evaluated as log Kex (1 · Sr2+,2A-) = 3.4 ± 0.1. Further, the stability constant of the 1 · Sr2+ complex in nitrobenzene saturated with water was calculated for a temperature of 25 °C: log βnb (1 · Sr2+) = 12.5 ± 0.1. Finally, applying quantum mechanical DFT calculations, the most probable structure of the proved 1 · Sr2+ cationic complex was derived. In the resulting complex, which is most energetically favored, the "central" cation Sr2+ is bound by nine bonding interactions to the corresponding nine oxygen atoms of the parent enniatin B ligand. The interaction energy of the considered 1 · Sr2+ complex was found to be -877.4 kJ/mol, confirming also the formation of this complex.

  12. Extraction and DFT study on interaction of the cesium cation with enniatin B

    NASA Astrophysics Data System (ADS)

    Makrlík, Emanuel; Böhm, Stanislav; Vaňura, Petr; Raich, Ivan

    2014-11-01

    By using extraction experiments and γ-activity measurements, the extraction constant corresponding to the equilibrium Cs+(aq) + A-(aq) + 1(nb)⇆1ṡCs+(nb) + A-(nb) taking place in the two-phase water-nitrobenzene system (A- = picrate, 1 = enniatin B; aq = aqueous phase, nb = nitrobenzene phase) was evaluated as log Kex (1ṡCs+, A-) = 2.3 ± 0.1. Further, the stability constant of the 1ṡCs+ complex in nitrobenzene saturated with water was calculated for a temperature of 25 °C: log βnb (1ṡCs+) = 4.2 ± 0.1. Finally, applying quantum mechanical DFT calculations, the most probable structure of the cationic complex species 1ṡCs+ was derived. In the resulting 1ṡCs+ complex, which is most energetically favored, the “central” cation Cs+ is bound by nine bonding interactions to the corresponding nine oxygen atoms of the parent enniatin B ligand. The interaction energy of the considered complex 1ṡCs+ was found to be -228.3 kJ/mol, confirming the formation of this investigated complex as well.

  13. Insight into deactivation of commercial SCR catalyst by arsenic: an experiment and DFT study.

    PubMed

    Peng, Yue; Li, Junhua; Si, Wenzhe; Luo, Jinming; Dai, Qizhou; Luo, Xubiao; Liu, Xin; Hao, Jiming

    2014-12-01

    Fresh and arsenic-poisoned V2O5–WO3/TiO2 catalysts are investigated by experiments and DFT calculations for SCR activity and the deactivation mechanism. Poisoned catalyst (1.40% of arsenic) presents lower NO conversion and more N2O formation than fresh. Stream (5%) could further decrease the activity of poisoned catalyst above 350 °C. The deactivation is not attributed to the loss of surface area or phase transformation of TiO2 at a certain arsenic content, but due to the coverage of the V2O5 cluster and the decrease in the surface acidity: the number of Lewis acid sites and the stability of Brønsted acid sites. Large amounts of surface hydroxyl induced by H2O molecules provide more unreactive As–OH groups and give rise to a further decrease in the SCR activity. N2O is mainly from NH3 unselective oxidation at high temperatures since the reducibility of catalysts and the number of surface-active oxygens are improved by As2O5. Finally, the reaction pathway seems unchanged after poisoning: NH3 adsorbed on both Lewis and Brønsted acid sites is reactive.

  14. DFT computational study on decarboxylation mechanism of salicylic acid and its derivatives in the anionic state

    NASA Astrophysics Data System (ADS)

    Gao, Lu; Hu, Yanying; Zhang, Huitu; Liu, Yanchun; Song, Zhidan; Dai, Yujie

    2016-07-01

    The mechanisms of the decarboxylation of salicylic acid anion and its ortho substituted derivatives in gas phase and aqueous solution have been investigated by B3LYP method of DFT theory using the 6-31++G (d,p) basis set. The decarboxylation process includes hydrogen transfers from hydroxyl to carboxyl group and from carboxyl to the α-C of the aryl ring. The mechanism suggested is a pseudo-unimolecular decomposition of the salicylic acid anion and the hydrogen transfer from carboxyl to the α-C of the aryl ring is the rate determining step. Compared with the decarboxylation process in gas phase, the energy barriers in aqueous solution approximately declined by 25%-31%with the water mediation of the hydrogen transfer from carboxyl to the α-C of the aryl ring. The effects of substituents at the ortho position on the decarboxylation process were also investigated. Both the electron donating CH3 and withdrawing group NO2 at the ortho position of carboxyl group can further reduce the reaction energy barriers of the decarboxylation of salicylic acid anions.

  15. Understanding the cooperative NHC/LA catalysis for stereoselective annulation reactions with homoenolates. A DFT study.

    PubMed

    Domingo, Luis R; Zaragozá, Ramón J; Arnó, Manuel

    2011-10-01

    The role of Ti(Oi-Pr)(4) Lewis acid (LA) in the cooperative N-heterocyclic carbene (NHC)/LA catalyzed addition of enals to enones to yield cis-cyclopentenes has been investigated using DFT methods at the B3LYP/6-31G** computational level. Ti(IV) effectively catalyzes the reaction by formation of a complex with cinnamaldehyde 1, which favors the nucleophilic attack of NHC 5 on 1, and the subsequent proton abstraction to yield the extended Ti(IV)-Breslow intermediate 21. The nature of the metal involved in the LA catalyst plays a relevant role due to the more basic character of NHCs than aldehydes. Thus, strong LAs, such as Zn(OTf)(2), prevent the catalytic behavior of NHCs to form a very stable complex. The subsequent formation of a complex between chalcone 2 and the extended Ti(IV)-Breslow intermediate 21 favors the cis stereoselective C-C bond-formation. Analysis of the structures of Ti(IV)-complex precursors for the cis and trans C-C bond-formation steps allows for an explanation of the unexpected cis stereoselectivity.

  16. Insight into deactivation of commercial SCR catalyst by arsenic: an experiment and DFT study.

    PubMed

    Peng, Yue; Li, Junhua; Si, Wenzhe; Luo, Jinming; Dai, Qizhou; Luo, Xubiao; Liu, Xin; Hao, Jiming

    2014-12-01

    Fresh and arsenic-poisoned V2O5–WO3/TiO2 catalysts are investigated by experiments and DFT calculations for SCR activity and the deactivation mechanism. Poisoned catalyst (1.40% of arsenic) presents lower NO conversion and more N2O formation than fresh. Stream (5%) could further decrease the activity of poisoned catalyst above 350 °C. The deactivation is not attributed to the loss of surface area or phase transformation of TiO2 at a certain arsenic content, but due to the coverage of the V2O5 cluster and the decrease in the surface acidity: the number of Lewis acid sites and the stability of Brønsted acid sites. Large amounts of surface hydroxyl induced by H2O molecules provide more unreactive As–OH groups and give rise to a further decrease in the SCR activity. N2O is mainly from NH3 unselective oxidation at high temperatures since the reducibility of catalysts and the number of surface-active oxygens are improved by As2O5. Finally, the reaction pathway seems unchanged after poisoning: NH3 adsorbed on both Lewis and Brønsted acid sites is reactive. PMID:25380546

  17. Very strong intramolecular hydrogen bonding of 1,2-dithenoylcyclopentadiene; DFT and spectroscopic studies

    NASA Astrophysics Data System (ADS)

    Nekoei, A.-R.; Tayyari, S. F.; Vakili, M.

    2014-10-01

    Structure and intramolecular hydrogen bond (IHB) of 1,2-dithenoylcyclopentadiene (DTCP) have been investigated with quantum mechanical calculations using density functional theory at B3LYP level using some Pople-style basis sets augmented with polarized and diffuse functions. The full isomeric and conformational analyses have been done, and the relative stabilities for different chelated and non-chelated enol and different keto forms have been reported. The estimated IHB energy and the barrier height for proton transfer (19.34 and 0.31 kcal/mol, respectively), together with the value of 0.082 Å for the Q Gilli’s symmetry coordinate and the σ-skeleton of the molecule (O⋯O distance of 1.463 Å), confirm a very strong, nearly symmetric, linear and short distance resonance assisted IHB (RAHB) in DTCP. The values of 18.29 ppm for the enolated proton chemical shift and 1128 cm-1 for out-of-plain bending of the OH bond, besides investigations on other IR and Raman bands associated with the IHB strength and electron delocalization in different segments of the molecule, confirm the results of the theoretical studies and a very strong RAHB in DTCP.

  18. DFT based study of transition metal nano-clusters for electrochemical NH3 production.

    PubMed

    Howalt, J G; Bligaard, T; Rossmeisl, J; Vegge, T

    2013-05-28

    Theoretical studies of the possibility of producing ammonia electrochemically at ambient temperature and pressure without direct N2 dissociation are presented. Density functional theory calculations were used in combination with the computational standard hydrogen electrode to calculate the free energy profile for the reduction of N2 admolecules and N adatoms on transition metal nanoclusters in contact with an acidic electrolyte. This work has established linear scaling relations for the dissociative reaction intermediates NH, NH2, and NH3. In addition, linear scaling relations for the associative reaction intermediates N2H, N2H2, and N2H3 have been determined. Furthermore, correlations between the adsorption energies of N, N2, and H have been established. These scaling relations and the free energy corrections are used to establish volcanoes describing the onset potential for electrochemical ammonia production and hence describe the potential determining steps for the electrochemical ammonia production. The competing hydrogen evolution reaction has also been analyzed for comparison. PMID:23598667

  19. The ionic states of iodobenzene studied by photoionization and ab initio configuration interaction and DFT computations

    SciTech Connect

    Palmer, Michael H. E-mail: tr01@staffmail.ed.ac.uk E-mail: nykj@phys.au.dk E-mail: desimone@iom.cnr.it Ridley, Trevor; Hoffmann, Søren Vrønning; Jones, Nykola C.; Coreno, Marcello; Grazioli, Cesare; Biczysko, Malgorzata; Baiardi, Alberto

    2015-04-07

    New valence electron photoelectron spectra of iodobenzene obtained using synchrotron radiation have been recorded. Ionization energies (IEs) determined using multi-configuration SCF calculation (MCSCF) procedures confirmed the adiabatic IE order as: X{sup 2}B{sub 1}theoretical studies. The calculated Franck-Condon vibrational spectral envelopes, including hot band contributions, for the first four ionic states reproduce the observed peak positions and intensities with reasonable accuracy. In order to simulate the observed spectra, different bandwidths are required for different states. The increase in the required bandwidths for the A{sup 2}A{sub 2} and B{sup 2}B{sub 2} states is attributed to internal conversion to lower-lying states. The presence of relatively high intensity sequence bands leads to asymmetry of each of the X{sup 2}B{sub 1} state bands.

  20. Structural, spectroscopic and DFT study of 4-methoxybenzohydrazide Schiff bases. A new series of polyfunctional ligands.

    PubMed

    Ferraresi-Curotto, Verónica; Echeverría, Gustavo A; Piro, Oscar E; Pis-Diez, Reinaldo; González-Baró, Ana C

    2015-02-25

    Five Schiff bases obtained from condensation of 4-methoxybenzohydrazide with related aldehydes, namely o-vanillin, vanillin, 5-bromovanillin, 5-chlorosalicylaldehyde and 5-bromosalicylaldehyde were prepared. A detailed structural and spectroscopic study is reported. The crystal structures of four members of the family were determined and compared with one another. The hydrazones obtained from 5-chlorosalicylaldehyde and 5-bromosalicylaldehyde resulted to be isomorphic to each other. The solid-state structures are stabilized by intra-molecular O-H⋯N interactions in salicylaldehyde derivatives between the O-H moiety from the aldehyde and the hydrazone nitrogen atom. All crystals are further stabilized by inter-molecular H-bonds mediated by the crystallization water molecule. A comparative analysis between experimental and theoretical results is presented. The conformational space was searched and geometries were optimized both in gas phase and including solvent effects. The structure is predicted for the compound for which the crystal structure was not determined. Infrared and electronic spectra were measured and assigned with the help of data obtained from computational methods based on the Density Functional Theory.

  1. Structural, spectroscopic and DFT study of 4-methoxybenzohydrazide Schiff bases. A new series of polyfunctional ligands.

    PubMed

    Ferraresi-Curotto, Verónica; Echeverría, Gustavo A; Piro, Oscar E; Pis-Diez, Reinaldo; González-Baró, Ana C

    2015-02-25

    Five Schiff bases obtained from condensation of 4-methoxybenzohydrazide with related aldehydes, namely o-vanillin, vanillin, 5-bromovanillin, 5-chlorosalicylaldehyde and 5-bromosalicylaldehyde were prepared. A detailed structural and spectroscopic study is reported. The crystal structures of four members of the family were determined and compared with one another. The hydrazones obtained from 5-chlorosalicylaldehyde and 5-bromosalicylaldehyde resulted to be isomorphic to each other. The solid-state structures are stabilized by intra-molecular O-H⋯N interactions in salicylaldehyde derivatives between the O-H moiety from the aldehyde and the hydrazone nitrogen atom. All crystals are further stabilized by inter-molecular H-bonds mediated by the crystallization water molecule. A comparative analysis between experimental and theoretical results is presented. The conformational space was searched and geometries were optimized both in gas phase and including solvent effects. The structure is predicted for the compound for which the crystal structure was not determined. Infrared and electronic spectra were measured and assigned with the help of data obtained from computational methods based on the Density Functional Theory. PMID:25255482

  2. Understanding the mechanism of the intramolecular stetter reaction. A DFT study.

    PubMed

    Domingo, Luis R; Zaragozá, Ramón J; Saéz, Jose A; Arnó, Manuel

    2012-01-01

    The mechanism of the N-heterocyclic carbene (NHC)-catalyzed intramolecular Stetter reaction of salicylaldehyde 1 to yield chromanone 3 has been theoretically studied at the B3LYP/6-31G** level. This NHC-catalyzed reaction takes place through six elementary steps, which involve: (i) formation of the Breslow intermediate IN2; (ii) an intramolecular Michael-Type addition in IN2 to form the new C-C s bond; and (iii) extrusion of the NHC catalyst from the Michael adduct to yield chromanone 3. Analysis of the relative free energies in toluene indicates that while formation of Breslow intermediate IN2 involves the rate-determining step of the catalytic process, the intramolecular Michael-type addition is the stereoselectivity determining step responsible for the configuration of the stereogenic carbon a to the carbonyl of chromanone 3. An ELF analysis at TSs and intermediates involved in the Michael-type addition allows for the characterization of the electronic changes along the C-C bond-formation. PMID:22301721

  3. Structural, spectroscopic and DFT study of 4-methoxybenzohydrazide Schiff bases. A new series of polyfunctional ligands

    NASA Astrophysics Data System (ADS)

    Ferraresi-Curotto, Verónica; Echeverría, Gustavo A.; Piro, Oscar E.; Pis-Diez, Reinaldo; González-Baró, Ana C.

    2015-02-01

    Five Schiff bases obtained from condensation of 4-methoxybenzohydrazide with related aldehydes, namely o-vanillin, vanillin, 5-bromovanillin, 5-chlorosalicylaldehyde and 5-bromosalicylaldehyde were prepared. A detailed structural and spectroscopic study is reported. The crystal structures of four members of the family were determined and compared with one another. The hydrazones obtained from 5-chlorosalicylaldehyde and 5-bromosalicylaldehyde resulted to be isomorphic to each other. The solid-state structures are stabilized by intra-molecular Osbnd H⋯N interactions in salicylaldehyde derivatives between the Osbnd H moiety from the aldehyde and the hydrazone nitrogen atom. All crystals are further stabilized by inter-molecular H-bonds mediated by the crystallization water molecule. A comparative analysis between experimental and theoretical results is presented. The conformational space was searched and geometries were optimized both in gas phase and including solvent effects. The structure is predicted for the compound for which the crystal structure was not determined. Infrared and electronic spectra were measured and assigned with the help of data obtained from computational methods based on the Density Functional Theory.

  4. The ionic states of iodobenzene studied by photoionization and ab initio configuration interaction and DFT computations

    NASA Astrophysics Data System (ADS)

    Palmer, Michael H.; Ridley, Trevor; Hoffmann, Søren Vrønning; Jones, Nykola C.; Coreno, Marcello; de Simone, Monica; Grazioli, Cesare; Biczysko, Malgorzata; Baiardi, Alberto

    2015-04-01

    New valence electron photoelectron spectra of iodobenzene obtained using synchrotron radiation have been recorded. Ionization energies (IEs) determined using multi-configuration SCF calculation (MCSCF) procedures confirmed the adiabatic IE order as: X2B1theoretical studies. The calculated Franck-Condon vibrational spectral envelopes, including hot band contributions, for the first four ionic states reproduce the observed peak positions and intensities with reasonable accuracy. In order to simulate the observed spectra, different bandwidths are required for different states. The increase in the required bandwidths for the A2A2 and B2B2 states is attributed to internal conversion to lower-lying states. The presence of relatively high intensity sequence bands leads to asymmetry of each of the X2B1 state bands.

  5. Understanding the mechanism of the intramolecular stetter reaction. A DFT study.

    PubMed

    Domingo, Luis R; Zaragozá, Ramón J; Saéz, Jose A; Arnó, Manuel

    2012-01-01

    The mechanism of the N-heterocyclic carbene (NHC)-catalyzed intramolecular Stetter reaction of salicylaldehyde 1 to yield chromanone 3 has been theoretically studied at the B3LYP/6-31G** level. This NHC-catalyzed reaction takes place through six elementary steps, which involve: (i) formation of the Breslow intermediate IN2; (ii) an intramolecular Michael-Type addition in IN2 to form the new C-C s bond; and (iii) extrusion of the NHC catalyst from the Michael adduct to yield chromanone 3. Analysis of the relative free energies in toluene indicates that while formation of Breslow intermediate IN2 involves the rate-determining step of the catalytic process, the intramolecular Michael-type addition is the stereoselectivity determining step responsible for the configuration of the stereogenic carbon a to the carbonyl of chromanone 3. An ELF analysis at TSs and intermediates involved in the Michael-type addition allows for the characterization of the electronic changes along the C-C bond-formation.

  6. Structural, vibrational spectroscopic and nonlinear optical activity studies on 2-hydroxy- 3, 5-dinitropyridine: A DFT approach

    NASA Astrophysics Data System (ADS)

    Asath, R. Mohamed; Premkumar, S.; Jawahar, A.; Mathavan, T.; Dhas, M. Kumara; Benial, A. Milton Franklin

    2015-06-01

    The conformational analysis was carried out for 2-Hydroxy- 3, 5-dinitropyridine molecule using potential energy surface scan and the most stable optimized conformer was predicted. The vibrational frequencies and Mulliken atomic charge distribution were calculated for the optimized geometry of the molecule using DFT/B3LYP cc-pVQZ basis set by Gaussian 09 Program. The vibrational frequencies were assigned on the basis of potential energy distribution calculation using VEDA 4.0 program. In the Frontier molecular orbitals analysis, the molecular reactivity, kinetic stability, intramolecular charge transfer studies and the calculation of ionization energy, electron affinity, global hardness, chemical potential, electrophilicity index and softness values of the title molecule were carried out. The nonlinear optical activity of the molecule was studied by means of first order hyperpolarizability, which was computed as 7.64 times greater than urea. The natural bond orbital analysis was performed to confirm the nonlinear optical activity of the molecule.

  7. Structural, vibrational spectroscopic and nonlinear optical activity studies on 2-hydroxy- 3, 5-dinitropyridine: A DFT approach

    SciTech Connect

    Asath, R. Mohamed; Premkumar, S.; Mathavan, T.; Dhas, M. Kumara; Benial, A. Milton Franklin; Jawahar, A.

    2015-06-24

    The conformational analysis was carried out for 2-Hydroxy- 3, 5-dinitropyridine molecule using potential energy surface scan and the most stable optimized conformer was predicted. The vibrational frequencies and Mulliken atomic charge distribution were calculated for the optimized geometry of the molecule using DFT/B3LYP cc-pVQZ basis set by Gaussian 09 Program. The vibrational frequencies were assigned on the basis of potential energy distribution calculation using VEDA 4.0 program. In the Frontier molecular orbitals analysis, the molecular reactivity, kinetic stability, intramolecular charge transfer studies and the calculation of ionization energy, electron affinity, global hardness, chemical potential, electrophilicity index and softness values of the title molecule were carried out. The nonlinear optical activity of the molecule was studied by means of first order hyperpolarizability, which was computed as 7.64 times greater than urea. The natural bond orbital analysis was performed to confirm the nonlinear optical activity of the molecule.

  8. A comparative DFT study on aquation and nucleobase binding of ruthenium (II) and osmium (II) arene complexes.

    PubMed

    Wang, Hanlu; Zeng, Xingye; Zhou, Rujin; Zhao, Cunyuan

    2013-11-01

    The potential energy surfaces of the reactions of organometallic arene complexes of the type [(η (6)-arene)M(II)(pic)Cl] (where pic = 2-picolinic acid, M = Ru or Os) were examined by a DFT computational study. Among the seven density functional methods, hybrid exchange functional B3LYP outperforms the others to explain the aquation of the complexes. The reactions and binding energies of Ru(II) and Os(II) arene complexes with both 9EtG and 9EtA were studied to gain insight into the reactivity of these types of organometallic complexes with DNA. The obtained data rationalize experimental observation, contributing to partly understanding the potential biological and medical applications of organometallic complexes.

  9. A comparative DFT study on aquation and nucleobase binding of ruthenium (II) and osmium (II) arene complexes.

    PubMed

    Wang, Hanlu; Zeng, Xingye; Zhou, Rujin; Zhao, Cunyuan

    2013-11-01

    The potential energy surfaces of the reactions of organometallic arene complexes of the type [(η (6)-arene)M(II)(pic)Cl] (where pic = 2-picolinic acid, M = Ru or Os) were examined by a DFT computational study. Among the seven density functional methods, hybrid exchange functional B3LYP outperforms the others to explain the aquation of the complexes. The reactions and binding energies of Ru(II) and Os(II) arene complexes with both 9EtG and 9EtA were studied to gain insight into the reactivity of these types of organometallic complexes with DNA. The obtained data rationalize experimental observation, contributing to partly understanding the potential biological and medical applications of organometallic complexes. PMID:24037457

  10. Theoretical study of the regioselective cyclization of enaminones in the construction of benzofurans and indoles.

    PubMed

    Herrera, Rafael; Méndez, Francisco; Jiménez, Fabiola; Cruz, M Carmen; Tamariz, Joaquín

    2016-05-01

    A theoretical study was undertaken regarding the regioselective Lewis acid-promoted intramolecular cyclization of novel enaminones 1-3 leading to the corresponding benzofurans 4-5 and indoles 6. The density functional theory (DFT) and hard and soft acids and bases (HSAB) principle provided data to describe the electronic effects of the substituents in the reactivity of the benzene ring and the enaminone moiety. The condensed and local Fukui functions for nucleophilic and electrophilic attacks of the reactants accounted for the experimentally observed preference, in regard to precursors 1-3, of the cyclization between the C6' carbon (rather than the C2' carbon) of the benzene ring and the C3 center of the enaminone moiety. PMID:27132239

  11. Experimental and theoretical spectroscopic and structural study of A-ring substituted camptothecins

    NASA Astrophysics Data System (ADS)

    Ivanova, Bojidarka B.; Spiteller, Michael

    2012-03-01

    The molecular architecture design and physical properties of seven camptothecin (CPT) alkaloids, structurally related to irinotecan (CPT-11), substituted with the cyclic bulk N-aliphatic substituents at A-ring as well as their different protonated forms were studied. The correlation between the molecular geometry and physical properties of the neutral lactone form and different possible cationic forms was elucidated, using the electronic absorptions (EAs), circular dichroic (CD) and Raman spectroscopy within the far-IR region as well as electrospray ionization and matrix-assisted laser desorption/ionization mass spectrometry and nuclear magnetic resonance methods. The electronic structures, and properties of the neutral CPTs, their mono- and diprotonated forms as well as molecular ion fragments, obtained by the mass spectrometric data are predicted theoretically using the DFT method.

  12. Theoretical study on the mechanism and kinetics of acetaldehyde and hydroperoxyl radical: An important atmospheric reaction

    NASA Astrophysics Data System (ADS)

    Farnia, Solaleh; Vahedpour, Morteza; Abedi, Mostafa; Farrokhpour, Hossein

    2013-09-01

    A systematic theoretical study was performed on the mechanism and kinetics of the atmospheric reaction of acetaldehyde (CH3CHO) and hydroperoxyl radical (HO2) in the gas phase. The DFT-B3LYP/6-311++G(3df,3pd) and CCSD(T)/6-311++G(d,p) methods were employed for calculations. Based on the calculations, this reaction leads to four different products through radical addition and hydrogen abstraction mechanisms which are very important in atmospheric and combustion chemistry. The favorable reaction paths begin with α-hydroxyethylperoxy radical, CH3CH(OO)OH, in a exothermic process and finally leads to the product P1 (CH3COOH + OH). The overall rate constants for favorite reaction paths have been calculated at different temperatures (200-2500 K).

  13. Protonation effects on the UV/Vis absorption spectra of imatinib: A theoretical and experimental study

    NASA Astrophysics Data System (ADS)

    Grante, Ilze; Actins, Andris; Orola, Liana

    2014-08-01

    An experimental and theoretical investigation of protonation effects on the UV/Vis absorption spectra of imatinib showed systematic changes of absorption depending on the pH, and a new absorption band appeared below pH 2. These changes in the UV/Vis absorption spectra were interpreted using quantum chemical calculations. The geometry of various imatinib cations in the gas phase and in ethanol solution was optimized with the DFT/B3LYP method. The resultant geometries were compared to the experimentally determined crystal structures of imatinib salts. The semi-empirical ZINDO-CI method was employed to calculate the absorption lines and electronic transitions. Our study suggests that the formation of the extra near-UV absorption band resulted from an increase of imatinib trication concentration in the solution, while the rapid increase of the first absorption maximum could be attributed to both the formation of imatinib trication and tetracation.

  14. Synthesis, characterization, investigation of biological activity and theoretical studies of hydrazone compounds containing choloroacetyl group

    NASA Astrophysics Data System (ADS)

    Cukurovali, Alaaddin; Yilmaz, Engin

    2014-10-01

    In this study, three new hydrazide-hydrazone derivative compounds which contain choloroacetyl group have been synthesized and characterized. In the characterization, spectral techniques such as IR, 1H NMR, 13C NMR and UV-Vis spectroscopy techniques were used. Antibacterial effects of the synthesized compounds were investigated against Staphylococcus aureus ATCC 29213, Enterococcus faecalis ATCC 29212, Escherichia coli ATCC 25922 and Pseudomonas aeruginosa ATCC 27853. In the theoretical calculations Gaussian 09 software was used with the DFT/6-311+(d,p) basis set. Experimental X-ray analysis of compounds has not been studied. Theoretical bond lengths of synthesized compounds were compared with experimental bond lengths of a similar compound. Theoretical and experimental bond lengths are in good agreement with R2: 0.896, 0.899 and 0.900 for compounds 1, 2, and 3, respectively. For antibacterial activity, the most effective one was found to be N‧-(4-bromobenzylidene)-2-chloro-N-(4-(3-methyl-3-phenylcyclobutyl)-thiazol-2-yl) acetohydrazide against P.aeroginaosa ATTC 27853, among the studied compounds.

  15. Theoretical molecular studies of astrophysical interest

    NASA Technical Reports Server (NTRS)

    Flynn, George

    1991-01-01

    When work under this grant began in 1974 there was a great need for state-to-state collisional excitation rates for interstellar molecules observed by radio astronomers. These were required to interpret observed line intensities in terms of local temperatures and densities, but, owing to lack of experimental or theoretical values, estimates then being used for this purpose ranged over several orders of magnitude. A problem of particular interest was collisional excitation of formaldehyde; Townes and Cheung had suggested that the relative size of different state-to-state rates (propensity rules) was responsible for the anomalous absorption observed for this species. We believed that numerical molecular scattering techniques (in particular the close coupling or coupled channel method) could be used to obtain accurate results, and that these would be computationally feasible since only a few molecular rotational levels are populated at the low temperatures thought to prevail in the observed regions. Such calculations also require detailed knowledge of the intermolecular forces, but we thought that those could also be obtained with sufficient accuracy by theoretical (quantum chemical) techniques. Others, notably Roy Gordon at Harvard, had made progress in solving the molecular scattering equations, generally using semi-empirical intermolecular potentials. Work done under this grant generalized Gordon's scattering code, and introduced the use of theoretical interaction potentials obtained by solving the molecular Schroedinger equation. Earlier work had considered only the excitation of a diatomic molecule by collisions with an atom, and we extended the formalism to include excitation of more general molecular rotors (e.g., H2CO, NH2, and H2O) and also collisions of two rotors (e.g., H2-H2).

  16. A quantum theoretical study of polyimides

    NASA Technical Reports Server (NTRS)

    Burke, Luke A.

    1987-01-01

    One of the most important contributions of theoretical chemistry is the correct prediction of properties of materials before any costly experimental work begins. This is especially true in the field of electrically conducting polymers. Development of the Valence Effective Hamiltonian (VEH) technique for the calculation of the band structure of polymers was initiated. The necessary VEH potentials were developed for the sulfur and oxygen atoms within the particular molecular environments and the explanation explored for the success of this approximate method in predicting the optical properties of conducting polymers.

  17. Recent Theoretical Studies On Excitation and Recombination

    NASA Technical Reports Server (NTRS)

    Pradhan, Anil K.

    2000-01-01

    New advances in the theoretical treatment of atomic processes in plasmas are described. These enable not only an integrated, unified, and self-consistent treatment of important radiative and collisional processes, but also large-scale computation of atomic data with high accuracy. An extension of the R-matrix work, from excitation and photoionization to electron-ion recombination, includes a unified method that subsumes both the radiative and the di-electronic recombination processes in an ab initio manner. The extensive collisional calculations for iron and iron-peak elements under the Iron Project are also discussed.

  18. Electronic structure, hydrogen bonding and spectroscopic profile of a new 1,2,4-triazole-5(4H)-thione derivative: A combined experimental and theoretical (DFT) analysis

    NASA Astrophysics Data System (ADS)

    Al-Tamimi, Abdul-Malek S.

    2016-09-01

    Density functional theory has been implemented to study the electronic structure, molecular properties and vibrational spectra of 3-(adamantan-1-yl)-4-(4-chlorophenyl)-1H-1,2,4-triazole-5(4H)-thione, a novel 1,2,4-triazole-5(4H)-thione derivative. Hydrogen bonded dimer of the title molecule has been studied using B3LYP, M06-2X and X3LYP functionals at 6-311++ G(d,p) level of theory. The intermolecular hydrogen bonding has been studied using NBO analysis of the dimer. Bader's AIM theory was also used to evaluate the strength as well as the hydrogen bonding characteristics. Experimental FT-IR and FT-Raman spectra of the title molecule were related with the spectral data obtained with DFT/B3LYP method. The 1H NMR chemical shifts of the title molecule were calculated by the GIAO method and compared with experimental results. Dipole moment, polarizability (α), first order static hyperpolarizability (β) along with molecular electrostatic potential surface have been calculated. Frequency-dependent first hyperpolarizabilities, β(-2ω;ω,ω) and β(-ω;ω,0) have also been evaluated to study the non-linear optical behavior of the title compound. UV-Vis spectrum of the title molecule was recorded and TD-DFT method has been used to calculate six lowest excited states and the corresponding excitation energies.

  19. β-turn tendency in N-methylated peptides with dehydrophenylalanine residue: DFT study.

    PubMed

    Buczek, Aneta; Wałęsa, Roksana; Broda, Małgorzata A

    2012-07-01

    The tendency to adopt β-turn conformation by model dipeptides with α,β-dehydrophenylalanine (ΔPhe) residue in the gas phase and in solution is investigated by theoretical methods. We pay special attention to a dependence of conformational properties on the side-chain configuration of dehydro residue and the influence of N-methylation on β-turn stability. An extensive computational study of the conformational preferences of Z and E isomers of dipeptides Ac-Gly-(E/Z)-ΔPhe-NHMe (1a / 1b) and Ac-Gly-(E/Z)-ΔPhe-NMe(2) (2a/2b) by B3LYP/6-311++G(d,p) and MP2/6-311++G(d,p) methods is reported. It is shown that, in agreement with experimental data, Ac-Gly-(Z)-ΔPhe-NHMe has a great tendency to adopt β-turn conformation. In the gas phase the type II β-turn is preferred, whereas in the polar environment, the type I. On the other hand, dehydro residue in Ac-Gly-(E)-ΔPhe-NHMe has a preference to adopt extended conformations in all environments. N-methylation of C-terminal amide group, which prevents the formation of 1←4 intramolecular hydrogen bond, change dramatically the conformational properties of studied dehydropeptides. Especially, the tendency to adopt β-turn conformations is much weaker for the N-methylated Z isomer (Ac-Gly-(Z)-ΔPhe-NMe(2) ), both in vacuo and in the polar environment. On the contrary, N-methylated E isomer (Ac-Gly-(E)-ΔPhe-NMe(2) ) can easier adopt β-turn conformation, but the backbone torsion angles (ϕ(1) , ψ(1) , ϕ(2) , ψ(2) ) are off the limits for common β-turn types.

  20. Electronic structure of copper phthalocyanine: an experimental and theoretical study of occupied and unoccupied levels.

    PubMed

    Evangelista, Fabrizio; Carravetta, Vincenzo; Stefani, Giovanni; Jansik, Branislav; Alagia, Michele; Stranges, Stefano; Ruocco, Alessandro

    2007-03-28

    An experimental and theoretical study of the electronic structure of copper phthalocyanine (CuPc) molecule is presented. We performed x-ray photoemission spectroscopy (XPS) and photoabsorption [x-ray absorption near-edge structure (XANES)] gas phase experiments and we compared the results with self-consistent field, density functional theory (DFT), and static-exchange theoretical calculations. In addition, ultraviolet photoelectron spectra (UPS) allowed disentangling several outer molecular orbitals. A detailed study of the two highest occupied orbitals (having a(1u) and b(1g) symmetries) is presented: the high energy resolution available for UPS measurements allowed resolving an extra feature assigned to vibrational stretching in the pyrrole rings. This observation, together with the computed DFT electron density distributions of the outer valence orbitals, suggests that the a(1u) orbital (the highest occupied molecular orbital) is mainly localized on the carbon atoms of pyrrole rings and it is doubly occupied, while the b(1g) orbital, singly occupied, is mainly localized on the Cu atom. Ab initio calculations of XPS and XANES spectra at carbon K edge of CuPc are also presented. The comparison between experiment and theory revealed that, in spite of being formally not equivalent, carbon atoms of the benzene rings experience a similar electronic environment. Carbon K-edge absorption spectra were interpreted in terms of different contributions coming from chemically shifted C 1s orbitals of the nonequivalent carbon atoms on the inner ring of the molecule formed by the sequence of CN bonds and on the benzene rings, respectively, and also in terms of different electronic distributions of the excited lowest unoccupied molecular orbital (LUMO) and LUMO+1. In particular, the degenerate LUMO appears to be mostly localized on the inner pyrrole ring.

  1. Electronic structure of copper phthalocyanine: An experimental and theoretical study of occupied and unoccupied levels

    SciTech Connect

    Evangelista, Fabrizio; Carravetta, Vincenzo; Stefani, Giovanni; Jansik, Branislav; Alagia, Michele; Stranges, Stefano; Ruocco, Alessandro

    2007-03-28

    An experimental and theoretical study of the electronic structure of copper phthalocyanine (CuPc) molecule is presented. We performed x-ray photoemission spectroscopy (XPS) and photoabsorption [x-ray absorption near-edge structure (XANES)] gas phase experiments and we compared the results with self-consistent field, density functional theory (DFT), and static-exchange theoretical calculations. In addition, ultraviolet photoelectron spectra (UPS) allowed disentangling several outer molecular orbitals. A detailed study of the two highest occupied orbitals (having a{sub 1u} and b{sub 1g} symmetries) is presented: the high energy resolution available for UPS measurements allowed resolving an extra feature assigned to vibrational stretching in the pyrrole rings. This observation, together with the computed DFT electron density distributions of the outer valence orbitals, suggests that the a{sub 1u} orbital (the highest occupied molecular orbital) is mainly localized on the carbon atoms of pyrrole rings and it is doubly occupied, while the b{sub 1g} orbital, singly occupied, is mainly localized on the Cu atom. Ab initio calculations of XPS and XANES spectra at carbon K edge of CuPc are also presented. The comparison between experiment and theory revealed that, in spite of being formally not equivalent, carbon atoms of the benzene rings experience a similar electronic environment. Carbon K-edge absorption spectra were interpreted in terms of different contributions coming from chemically shifted C 1s orbitals of the nonequivalent carbon atoms on the inner ring of the molecule formed by the sequence of CN bonds and on the benzene rings, respectively, and also in terms of different electronic distributions of the excited lowest unoccupied molecular orbital (LUMO) and LUMO+1. In particular, the degenerate LUMO appears to be mostly localized on the inner pyrrole ring.

  2. A DFT study of interaction of hydrogen molecules and (5,5) carbon nanotube with bioinspired functionalization

    NASA Astrophysics Data System (ADS)

    Khan, Md Shahzad; Khan, Mohd Shahid

    2013-10-01

    All electron density functional theory (DFT) calculations have been carried out for calcium-doped porphyrin-incorporated(5, 5) carbon nanotube (Ca-PICNT) to investigate the formation energies, electronic properties of this system, and its application in hydrogen storage. It is found that the incorporation of porphyrin ring in carbon nanotube led to a decreased value of the highest occupied molecular orbital and lowest unoccupied molecular orbital gap and a strong binding of Ca over nanotube and consequently resulted to a drastic reduction of clustering of Ca atom over Ca-decorated carbon nanotube. The Ca-PICNT can bind a maximum of 4H2 with binding energy value of 0.105 eV per H2 molecule. Charge decomposition analysis indicated that the mode of hydrogen storage is via coulomb-electrostatic force, which is further supported by the natural bond orbital and partial density-of-states studies.

  3. Doped penta-graphene and hydrogenation of its related structures: a structural and electronic DFT-D study.

    PubMed

    Quijano-Briones, J J; Fernández-Escamilla, H N; Tlahuice-Flores, A

    2016-06-21

    The structure of penta-graphene (penta-C), an irregular pentagonal two-dimensional (2D) structure, has been predicted recently. In this communication we carried out a dispersion-corrected density functional theory (DFT-D) study of the penta-C doped with Si, Ge and Sn atoms and its related hydrogenated penta-C structures (H-penta-C-X). We predict various new structures as thermally stable based on Born-Oppenheimer molecular dynamics (BOMD) calculations. Moreover, their dynamical stability is attested by phonon dispersions spectra. In general, we found that the bandgap value of doped structures reduces, while H-penta-C-X show large bandgap values. This feature can be exploited for potential uses of hydrogenated doped-penta-C structures as dielectric layers in electronic devices.

  4. In Vitro Antioxidant Activity of Selected 4-Hydroxy-chromene-2-one Derivatives—SAR, QSAR and DFT Studies

    PubMed Central

    Mladenović, Milan; Mihailović, Mirjana; Bogojević, Desanka; Matić, Sanja; Nićiforović, Neda; Mihailović, Vladimir; Vuković, Nenad; Sukdolak, Slobodan; Solujić, Slavica

    2011-01-01

    The series of fifteen synthesized 4-hydroxycoumarin derivatives was subjected to antioxidant activity evaluation in vitro, through total antioxidant capacity, 1,1-diphenyl-2-picryl-hydrazyl (DPPH), hydroxyl radical, lipid peroxide scavenging and chelating activity. The highest activity was detected during the radicals scavenging, with 2b, 6b, 2c, and 4c noticed as the most active. The antioxidant activity was further quantified by the quantitative structure-activity relationships (QSAR) studies. For this purpose, the structures were optimized using Paramethric Method 6 (PM6) semi-empirical and Density Functional Theory (DFT) B3LYP methods. Bond dissociation enthalpies of coumarin 4-OH, Natural Bond Orbital (NBO) gained hybridization of the oxygen, acidity of the hydrogen atom and various molecular descriptors obtained, were correlated with biological activity, after which we designed 20 new antioxidant structures, using the most favorable structural motifs, with much improved predicted activity in vitro. PMID:21686153

  5. DFT study on the molecular mechanism of the [4 + 2] cycloaddition between thiobenzophenone and arylalkenes via radical cations.

    PubMed

    Domingo, Luis R; Pérez-Ruiz, Raúl; Argüello, Juan E; Miranda, Miguel A

    2009-05-14

    The mechanistic aspects of the radical cationic version of the [4 + 2] cycloaddition between thiobenzophenone 1 and three aryl-substituted alkenes 2a-c have been studied using DFT methods at the UB3LYP/6-31G* level of theory. In the ground state, the Diels-Alder reaction follows an asynchronous concerted mechanism; the large activation energy associated with bond formation prevents this process. After generation of the radical cation (RC), formation of a molecular complex (MC) between 1 and 2a-c initiates a stepwise mechanism, with attack of the sulfur atom of 1 to the aryl-conjugated position of 2a-c. Subsequent ring closure is the rate-determining step of these cycloadditions. Methoxy or dimethylamino substitution at the aryl group, while stabilizing the corresponding RC, results in a less exothermic formation of MC and a significant increase of the cycloaddition barrier.

  6. Doped penta-graphene and hydrogenation of its related structures: a structural and electronic DFT-D study.

    PubMed

    Quijano-Briones, J J; Fernández-Escamilla, H N; Tlahuice-Flores, A

    2016-06-21

    The structure of penta-graphene (penta-C), an irregular pentagonal two-dimensional (2D) structure, has been predicted recently. In this communication we carried out a dispersion-corrected density functional theory (DFT-D) study of the penta-C doped with Si, Ge and Sn atoms and its related hydrogenated penta-C structures (H-penta-C-X). We predict various new structures as thermally stable based on Born-Oppenheimer molecular dynamics (BOMD) calculations. Moreover, their dynamical stability is attested by phonon dispersions spectra. In general, we found that the bandgap value of doped structures reduces, while H-penta-C-X show large bandgap values. This feature can be exploited for potential uses of hydrogenated doped-penta-C structures as dielectric layers in electronic devices. PMID:27220553

  7. Theoretical and experimental NMR studies on muscimol from fly agaric mushroom (Amanita muscaria)

    NASA Astrophysics Data System (ADS)

    Kupka, Teobald; Wieczorek, Piotr P.

    2016-01-01

    In this article we report results of combined theoretical and experimental NMR studies on muscimol, the bioactive alkaloid from fly agaric mushroom (Amanita muscaria). The assignment of 1H and 13C NMR spectra of muscimol in DMSO-d6 was supported by additional two-dimensional heteronuclear correlated spectra (2D NMR) and gauge independent atomic orbital (GIAO) NMR calculations using density functional theory (DFT). The effect of solvent in theoretical calculations was included via polarized continuum model (PCM) and the hybrid three-parameter B3LYP density functional in combination with 6-311++G(3df,2pd) basis set enabled calculation of reliable structures of non-ionized (neutral) molecule and its NH and zwitterionic forms in the gas phase, chloroform, DMSO and water. GIAO NMR calculations, using equilibrium and rovibrationally averaged geometry, at B3LYP/6-31G* and B3LYP/aug-cc-pVTZ-J levels of theory provided muscimol nuclear magnetic shieldings. The theoretical proton and carbon chemical shifts were critically compared with experimental NMR spectra measured in DMSO. Our results provide useful information on its structure in solution. We believe that such data could improve the understanding of basic features of muscimol at atomistic level and provide another tool in studies related to GABA analogs.

  8. Redox properties of biscyclopentadienyl uranium(V) imido-halide complexes: a relativistic DFT study.

    PubMed

    Elkechai, Aziz; Kias, Farida; Talbi, Fazia; Boucekkine, Abdou

    2014-06-01

    Calculations of ionization energies (IE) and electron affinities (EA) of a series of biscyclopentadienyl imido-halide uranium(V) complexes Cp*2U(=N-2,6-(i)Pr2-C6H3)(X) with X =  F, Cl, Br, and I, related to the U(IV)/U(V) and U(V)/U(VI) redox systems, were carried out, for the first time, using density functional theory (DFT) in the framework of the relativistic zeroth order regular approximation (ZORA) coupled with the conductor-like screening model (COSMO) solvation approach. A very good linear correlation (R(2) =  0.993) was obtained, between calculated ionization energies at the ZORA/BP86/TZP level, and the experimental half-wave oxidation potentials E1/2. A similar linear correlation between the computed electron affinities and the electrochemical reduction U(IV)/U(III) potentials (R(2) =  0.996) is obtained. The importance of solvent effects and of spin-orbit coupling is definitively confirmed. The molecular orbital analysis underlines the crucial role played by the 5f orbitals of the central metal whereas the Nalewajski-Mrozek (N-M) bond indices explain well the bond distances variations following the redox processes. The IE variation of the complexes, i.e., IE(F) < IE(Cl) < IE(Br) < IE(I) is also well rationalized considering the frontier MO diagrams of these species. Finally, this work confirms the relevance of the Hirshfeld charges analysis which bring to light an excellent linear correlation (R(2) =  0.999) between the variations of the uranium charges and E1/2 in the reduction process of the U(V) species.

  9. Benchmark study of DFT functionals for late-transition-metal reactions.

    PubMed

    Quintal, Miriam M; Karton, Amir; Iron, Mark A; Boese, A Daniel; Martin, Jan M L

    2006-01-19

    The performance of a wide variety of DFT exchange-correlation functionals for a number of late-transition-metal reaction profiles has been considered. Benchmark ab-initio reference data for the prototype reactions Pd + H2, Pd + CH4, Pd + C2H6 (both C-C and C-H activation), and Pd + CH3Cl are presented, while ab-initio data of lesser quality were obtained for the catalytic hydrogenation of acetone and for the low-oxidation-state and high-oxidation-state mechanisms of the Heck reaction. "Kinetics" functionals such as mPW1K, PWB6K, BB1K, and BMK clearly perform more poorly for late-transition-metal reactions than for main-group reactions, as well as compared to general-purpose functionals. There is no single "best functional" for late-transition-metal reactions, but rather a cluster of several functionals (PBE0, B1B95, PW6B95, and TPSS25B95) that perform about equally well; if main-group thermochemical performance is additionally considered, then B1B95 and PW6B95 emerge as the best performers. TPSS25B95 and TPSS33B95 offer attractive performance compromises if weak interactions and main-group barrier heights, respectively, are also important. In the ab-initio calculations, basis set superposition errors (BSSE) can be greatly reduced by ensuring that the metal spd shell has sufficient radial flexibility in the high-exponent range. Optimal HF percentages in hybrid functionals depend on the class of systems considered, increasing from anions to neutrals to cations to main-group barrier heights; transition-metal barrier heights represent an intermediate situation. The use of meta-GGA correlation functionals appears to be quite beneficial. PMID:16405344

  10. Hydrogen activation, diffusion, and clustering on CeO₂(111): a DFT+U study.

    PubMed

    Fernández-Torre, Delia; Carrasco, Javier; Ganduglia-Pirovano, M Verónica; Pérez, Rubén

    2014-07-01

    We present a comprehensive density functional theory+U study of the mechanisms underlying the dissociation of molecular hydrogen, and diffusion and clustering of the resulting atomic species on the CeO2(111) surface. Contrary to a widely held view based solely on a previous theoretical prediction, our results show conclusively that H2 dissociation is an activated process with a large energy barrier ~1.0 eV that is not significantly affected by coverage or the presence of surface oxygen vacancies. The reaction proceeds through a local energy minimum--where the molecule is located close to one of the surface oxygen atoms and the H-H bond has been substantially weaken by the interaction with the substrate--, and a transition state where one H atom is attached to a surface O atom and the other H atom sits on-top of a Ce(4+) ion. In addition, we have explored how several factors, including H coverage, the location of Ce(3+) ions as well as the U value, may affect the chemisorption energy and the relative stability of isolated OH groups versus pair and trimer structures. The trimer stability at low H coverages and the larger upward relaxation of the surface O atoms within the OH groups are consistent with the assignment of the frequent experimental observation by non-contact atomic force and scanning tunneling microscopies of bright protrusions on three neighboring surface O atoms to a triple OH group. The diffusion path of isolated H atoms on the surface goes through the adsorption on-top of an oxygen in the third atomic layer with a large energy barrier of ~1.8 eV. Overall, the large energy barriers for both, molecular dissociation and atomic diffusion, are consistent with the high activity and selectivity found recently in the partial hydrogenation of acetylene catalyzed by ceria at high H2/C2H2 ratios.

  11. A DFT study on structural, vibrational properties, and quasiparticle band structure of solid nitromethane.

    PubMed

    Appalakondaiah, S; Vaitheeswaran, G; Lebègue, S

    2013-05-14

    We report a detailed theoretical study of the structural and vibrational properties of solid nitromethane using first principles density functional calculations. The ground state properties were calculated using a plane wave pseudopotential code with either the local density approximation, the generalized gradient approximation, or with a correction to include van der Waals interactions. Our calculated equilibrium lattice parameters and volume using a dispersion correction are found to be in reasonable agreement with the experimental results. Also, our calculations reproduce the experimental trends in the structural properties at high pressure. We found a discontinuity in the bond length, bond angles, and also a weakening of hydrogen bond strength in the pressure range from 10 to 12 GPa, picturing the structural transition from phase I to phase II. Moreover, we predict the elastic constants of solid nitromethane and find that the corresponding bulk modulus is in good agreement with experiments. The calculated elastic constants show an order of C11> C22 > C33, indicating that the material is more compressible along the c-axis. We also calculated the zone center vibrational frequencies and discuss the internal and external modes of this material under pressure. From this, we found the softening of lattice modes around 8-11 GPa. We have also attempted the quasiparticle band structure of solid nitromethane with the G0W0 approximation and found that nitromethane is an indirect band gap insulator with a value of the band gap of about 7.8 eV with G0W0 approximation. Finally, the optical properties of this material, namely the absorptive and dispersive part of the dielectric function, and the refractive index and absorption spectra are calculated and the contribution of different transition peaks of the absorption spectra are analyzed. The static dielectric constant and refractive indices along the three inequivalent crystallographic directions indicate that this material

  12. Hydrogen activation, diffusion, and clustering on CeO₂(111): a DFT+U study.

    PubMed

    Fernández-Torre, Delia; Carrasco, Javier; Ganduglia-Pirovano, M Verónica; Pérez, Rubén

    2014-07-01

    We present a comprehensive density functional theory+U study of the mechanisms underlying the dissociation of molecular hydrogen, and diffusion and clustering of the resulting atomic species on the CeO2(111) surface. Contrary to a widely held view based solely on a previous theoretical prediction, our results show conclusively that H2 dissociation is an activated process with a large energy barrier ~1.0 eV that is not significantly affected by coverage or the presence of surface oxygen vacancies. The reaction proceeds through a local energy minimum--where the molecule is located close to one of the surface oxygen atoms and the H-H bond has been substantially weaken by the interaction with the substrate--, and a transition state where one H atom is attached to a surface O atom and the other H atom sits on-top of a Ce(4+) ion. In addition, we have explored how several factors, including H coverage, the location of Ce(3+) ions as well as the U value, may affect the chemisorption energy and the relative stability of isolated OH groups versus pair and trimer structures. The trimer stability at low H coverages and the larger upward relaxation of the surface O atoms within the OH groups are consistent with the assignment of the frequent experimental observation by non-contact atomic force and scanning tunneling microscopies of bright protrusions on three neighboring surface O atoms to a triple OH group. The diffusion path of isolated H atoms on the surface goes through the adsorption on-top of an oxygen in the third atomic layer with a large energy barrier of ~1.8 eV. Overall, the large energy barriers for both, molecular dissociation and atomic diffusion, are consistent with the high activity and selectivity found recently in the partial hydrogenation of acetylene catalyzed by ceria at high H2/C2H2 ratios. PMID:25005299

  13. DFT study of the water gas shift reaction on Ni(111), Ni(100) and Ni(110) surfaces

    NASA Astrophysics Data System (ADS)

    Mohsenzadeh, Abas; Richards, Tobias; Bolton, Kim

    2016-02-01

    Density functional theory (DFT) calculations were used to study the water gas shift (WGS) reaction on Ni(111), Ni(100) and Ni(110) surfaces. The adsorption energy for ten species involved in the reaction together with activation barriers and reaction energies for the nine most important elementary steps were determined using the same model and DFT methods. The results reveal that these energies are sensitive to the surface structure. In spite of this, the WGS reaction occurs mainly via the direct (also referred to as redox) pathway with the CO + O → CO2 reaction as the rate determining step on all three surfaces. The activation barrier obtained for this rate limiting step decreases in the order Ni(110) > Ni(111) > Ni(100). Therefore, if O species are present on the surfaces then the WGS reaction is fastest on the Ni(100) surface. However, the barrier for desorption of H2O (which is the source of the O species) is lower than its dissociation reaction on the Ni(111) and Ni(100) surfaces, but not on the Ni(110) surface. Hence, at low H2O(g) pressures, the direct pathway on the Ni(110) surface will dominate and will be the rate limiting step. The calculations also show that the reason that the WGS reaction does not primarily occur via the formate pathway is that this species is a stable intermediate on all surfaces. The reactions studied here support the Brønsted-Evans-Polanyi (BEP) principles with an R2 value of 0.99.

  14. A novel supramolecular compound of cadmium(II): Synthesis, characterization, crystal structure, ab initio HF, DFT calculations and solution study

    NASA Astrophysics Data System (ADS)

    Aghabozorg, Hossein; Manteghi, Faranak; Ghadermazi, Mohammad; Mirzaei, Masoud; Salimi, Ali R.; Shokrollahi, Ardeshir; Derki, Somayyeh; Eshtiagh-Hosseini, Hossein

    2009-02-01

    A novel compound with formula unit (pipzH 2)[Cd(pydc) 2]·6H 2O, was synthesized and characterized by IR, 1H NMR and 13C NMR spectroscopy, elemental analysis, single crystal X-ray diffractometry. Moreover, the solution behavior was studied, and ab initio HF, DFT calculations were carried out. The compound belongs to a great family of supramolecular metal complexes derived from a proton transfer ion pair i.e. (pipzH 2)(pydc), where pipz is piperazine and pydcH 2 is pyridine-2,6-dicarboxylic acid. The compound shows a distorted octahedral geometry around the six-coordinated Cd II atom. A variety of intermolecular O sbnd H···O, N sbnd H···O and C sbnd H···O hydrogen bonds are responsible to extend the supramolecular network of the compound. The geometry parameters of [Cd(pydc) 2] 2- complex and free (pydc) 2- ligand have been optimized with the B3LYP method of density functional theory (DFT) and ab initio Hartree-Fock (HF) methods for comparison. The effect of basis sets has been investigated using four combination basis sets. The electronic properties of the Cd II compound and free (pydc) 2- ligand have been investigated based on the natural bond orbital (NBO) analysis at the B3LYP/A level of theory which verifies that the synergistic effect have been occurred in the compound. In solution study, the protonation constants of pipz and pydc, the equilibrium constants for pydc/pipz proton transfer system and the stoichiometry and stability of the system with Cd 2+ ion in aqueous solution were investigated by potentiometric pH titrations. The stoichiometry of one of the most abundant complexed species in solution was found to be the same as that of the crystalline cadmium complex.

  15. Stability and spatial arrangement of the 2,4-dichlorophenoxyacetic acid and β-cyclodextrin inclusion compound: A theoretical study

    NASA Astrophysics Data System (ADS)

    Pereira, Robson A.; Anconi, Cleber P. A.; Nascimento, Clebio S.; De Almeida, Wagner B.; Dos Santos, Hélio F.

    2015-07-01

    The present letter reports results from a comprehensive theoretical analysis of the inclusion process involving 2,4-dichlorophenoxyacetic acid (2,4-D) and β-cyclodextrin (β-CD) for which the experimental data of formation is available. Spatial arrangement and stabilization energies were evaluated in gas phase and aqueous solution through density functional theory (DFT) and through the use of SMD implicit solvation approach. The discussed methodology was applied to predict the stability and identify the most favorable form (deprotonated or neutral) as well as the most probable spatial arrangement of the studied inclusion compound.

  16. Theoretical Study on Regioselectivity of the Diels-Alder Reaction between 1,8-Dichloroanthracene and Acrolein.

    PubMed

    Sultan, Mujeeb A; Karama, Usama; Almansour, Abdulrahman I; Soliman, Saied M

    2016-01-01

    A theoretical study of the regioselectivity of the Diels-Alder reaction between 1,8-dichloroanthracene and acrolein is performed using DFT at the B3LYP/6-31G(d,p) level of theory. The FMO analysis, global and local reactivity indices confirmed the reported experimental results. Potential energy surface analysis showed that the cycloadditions (CAs) favor the formation of the anti product. These results are in good agreement with the reported results obtained experimentally where the anti is the major product. PMID:27669204

  17. Theoretical study on Au(I)-catalyzed [2 + 2 + 2] cycloadditions of ynamides with two discrete nitriles.

    PubMed

    Liang, Haosheng; Bi, Siwei; Liu, Yuxia; Tang, Ya-Nan; Liu, Congcong

    2016-03-01

    The Au-catalyzed [2 + 2 + 2] cycloadditions of ynamides with two discrete nitriles were theoretically studied with the aid of DFT calculations. The reaction under consideration is found to start from binding of the catalyst with the ynamide rather than with the nitrile. The Au(i)-ynamide species can effectively induce dimerization of two nitrile molecules while the catalyst only cannot. The Au(i)-ynamide species () is revealed to be more reactive than the Au(i)-nitrile species. Also, the regioselectivity and the influence of EWG vs. EDG involved in the reaction were also rationalized. PMID:26908288

  18. Formation of Assemblies Comprising Ru–Polypyridine Complexes and CdSe Nanocrystals Studied by ATR-FTIR Spectroscopy and DFT Modeling

    SciTech Connect

    Koposov, Alexey Y.; Cardolaccia, Thomas; Albert, Victor; Badaeva, Ekaterina; Kilina, Svetlana; Meyer, Thomas J.; Tretiak, Sergei; Sykora, Milan

    2011-07-05

    The interaction between CdSe nanocrystals (NCs) passivated with trioctylphosphine oxide (TOPO) ligands and a series of Ru–polypyridine complexes was studied by attenuated total reflectance FTIR (ATR-FTIR) and modeled using density functional theory (DFT). The results of DFT modeling are consistent with the experiment, showing that for the deprotonated carboxylic acid group the coupling to two Cd atoms via a bridging mode is the energetically most favorable mode of attachment for all nonequivalent NC surface sites and that the attachment of the protonated carboxylic acid is thermodynamically significantly less favorable.

  19. Prototropic tautomerism of 4-Methyl 1,2,4-Triazole-3-Thione molecule in solvent water medium: DFT and Car-Parrinello molecular dynamics study

    NASA Astrophysics Data System (ADS)

    Dutta, Bipan; De, Rina; Chowdhury, Joydeep

    2015-12-01

    The ground state prototropic tautomerism of 4-Methyl 1,2,4-Triazole-3-Thione molecule in solvent water medium has been investigated with the aid of DFT and Car-Parrinello molecular dynamics (CPMD) simulation studies. The CPMD simulations envisage the possibility of proton transfer reactions of the molecule through the solvent water medium. Probable proton transfer pathways have been predicted from the DFT calculations which are substantiated by the natural bond orbital analyses. The evolution and breaking of the concerned bonds of the molecule for different proton transfer reaction pathways are also estimated.

  20. Synthesis, crystal structure, DFT study and photocatalytic property of a new Ni(II) complex of a symmetric N2O4-donor bis-Schiff base ligand

    NASA Astrophysics Data System (ADS)

    Wang, Hu; Meng, Xiangmin; Fan, Chuanbin; Fan, Yuhua; Bi, Caifeng

    2016-03-01

    A new complex, Ni(C22H26N2O10S2)·2CH3OH, with a sexidentate (N2O4) symmetric bis-Schiff base ligand (C22H26N2O10S2 = 1,2-bis(2-methoxy-6-formylphenoxy)ethane-2-aminoethane-sulfonic acid) has been synthesized and characterized by physico-chemical and spectroscopic methods. The X-ray crystal structure shows that the Ni(II) atom of the complex is six-coordinated by two nitrogens from Cdbnd N groups, two oxygens from ether groups and two hydroxyl oxygens from sulfonic acid groups in the mono-ligand, forming a distorted octahedral geometry. Theoretical study of the complex is carried out by density functional theory (DFT) method and the B3LYP method employing the 6-3l+G* basis set. Moreover, the complex proved to be good candidate for the photocatalytic degradation of methylene blue.

  1. Tuning the LUMO level of organic photovoltaic solar cells by conjugately fusing graphene flake: A DFT-B3LYP study

    NASA Astrophysics Data System (ADS)

    Ganji, M. Darvish; Tajbakhsh, M.; Kariminasab, M.; Alinezhad, H.

    2016-07-01

    The efficiency of polymer solar cells can be essentially enhanced by improving the performance of electron acceptor materials especially by increasing its lowest unoccupied molecular orbital (LUMO) level. To this aim, the electronic properties of an extremely π-extended system, graphene flake and functionalized graphene flake with phenyl-C-butyric methyl ester (PCBM) group, were investigated and compared with those of C60 ones. Several properties of phenyl-C61-butyric methyl ester ([C60]PCBM) derivatives have been calculated and compared against the experimental and other theoretical results. All geometrical and electronic structures calculations were carried out by using the density functional theory (DFT) method at the B3LYP level of theory. The results show that the phenyl ring of [C60]PCBM was substituted with the methoxy groups to increase the LUMO level of the respective system which is in agreement with other studies. We found that graphene flake functionalized by methoxy-PCBM group offer significant increase in the value of the LUMO energy level in comparison with C60 counterpart. Furthermore, the electrophilicity of this compound is lower than that of the other counterparts, which results in higher open circuit voltage (Voc) value in the photovoltaic device. These findings could provide fundamental insights in improving the Voc value as well as raising the LUMO levels of electron acceptor materials and may also serve as an alternative strategy to increase open circuit voltage in polymer solar cells.

  2. Synthesis, crystal structure, DFT study and photocatalytic property of a new Ni(II) complex of a symmetric N2O4-donor bis-Schiff base ligand

    NASA Astrophysics Data System (ADS)

    Wang, Hu; Meng, Xiangmin; Fan, Chuanbin; Fan, Yuhua; Bi, Caifeng

    2016-03-01

    A new complex, Ni(C22H26N2O10S2)·2CH3OH, with a sexidentate (N2O4) symmetric bis-Schiff base ligand (C22H26N2O10S2 = 1,2-bis(2-methoxy-6-formylphenoxy)ethane-2-aminoethane-sulfonic acid) has been synthesized and characterized by physico-chemical and spectroscopic methods. The X-ray crystal structure shows that the Ni(II) atom of the complex is six-coordinated by two nitrogens from Cdbnd N groups, two oxygens from ether groups and two hydroxyl oxygens from sulfonic acid groups in the mono-ligand, forming a distorted octahedral geometry. Theoretical study of the complex is carried out by density functional theory (DFT) method and the B3LYP method employing the 6-3l+G* basis set. Moreover, the complex proved to be good candidate for the photocatalytic degradation of methylene blue.

  3. Charge neutralization as studied experimentally and theoretically

    NASA Technical Reports Server (NTRS)

    Linson, L. M.

    1982-01-01

    Problems regarding an isolated sphere which emits negative charge are considered. Such a sphere could charge up to large potentials which would inhibit the electron beam from leaving the vicinity of the body. In order to avoid charging to high potentials, a vehicle must attract a return current equal to the emitted current. The present investigation is concerned with theoretical models of some processes believed to be important for the vehicle neutralization problem under various conditions. Attention is given to general time-scale considerations, the low-altitude regime, the high-altitude regime, vehicle-induced discharge, and beam-plasma discharge. The general pattern which emeres as a result of measurements is that below altitudes of approximately 125 + or - 5 km the vehicle potential rarely rises more than several tens of volts.

  4. Theoretical study of the NO beta system

    NASA Technical Reports Server (NTRS)

    Langhoff, Stephen R.; Partridge, Harry; Bauschlicher, Charles W., Jr.; Komornicki, Andrew

    1991-01-01

    A theoretical determination of the transition moment functions (TMFs) for the beta system of NO is presented. High levels of correlation treatment are required to show the changing degree of Rydberg character in the B2II with decreasing r values. The state-averaged complete-active-space self-consistent-field multireference configuration-interaction method is used for the determination. Previous lifetime measurements made with laser-induced fluorescence, varying between 2 and 0.85 microns, are discussed in terms of the calculated lifetimes for v-prime values 0-6, which vary from 2.12-1.17 microns. When larger r values are used for the transition moment function, the calculated lifetimes correlate with experimental lifetimes. The Einstein coefficients agree with experimental results, although limitations in the calibration of the spectrometer can account for systematic differences. The correlation with earlier experimental results suggests that radiative lifetimes are in the range of 1-2 microns.

  5. A complete synergy on the experimental and theoretical study of the pyridine derivatives - 2-Hydroxy-5-Nitropyridine and 2-Chloro-5-Nitropyridine

    NASA Astrophysics Data System (ADS)

    Sangeetha, M.; Mathammal, R.

    2016-08-01

    The present work signifies the spectroscopic study (FTIR and FT-Raman) of the chosen compounds 2-Hydroxy-5-Nitropyridine (2H5NP) and 2-Chloro-5-Nitropyridine (2Cl5NP). Density Functional Theory (DFT) is implemented for the calculation of the molecular geometries, normal modes of vibrations, and electronic properties such as band gap energy, Highest Occupied Molecular Orbital (HOMO) and Lowest Unoccupied Molecular Orbital (LUMO). NMR chemical shifts are obtained experimentally and calculated theoretically with the help of Gauge Invariant Atomic Orbital (GIAO) method. Furthermore, the Natural Bond Orbital (NBO) analysis, Molecular Electrostatic Potential (MEP) surface maps and Mulliken charge analysis is performed and discussed in detail. The theoretical calculations are performed with the aid of DFT method using the functional B3LYP and basis set 6-31+G (d,p). The detailed study of the chosen compounds helps in understanding the structural, physical and chemical properties for the further application in the field of pharmaceutics.

  6. Experimental and TD-DFT study of optical absorption of six explosive molecules: RDX, HMX, PETN, TNT, TATP, and HMTD.

    PubMed

    Cooper, Jason K; Grant, Christian D; Zhang, Jin Z

    2013-07-25

    Time dependent density function theory (TD-DFT) has been utilized to calculate the excitation energies and oscillator strengths of six common explosives: RDX (1,3,5-trinitroperhydro-1,3,5-triazine), β-HMX (octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine), TATP (triacetone triperoxide), HMTD (hexamethylene triperoxide diamine), TNT (2,4,6-trinitrotoluene), and PETN (pentaerythritol tetranitrate). The results were compared to experimental UV-vis absorption spectra collected in acetonitrile. Four computational methods were tested including: B3LYP, CAM-B3LYP, ωB97XD, and PBE0. PBE0 outperforms the other methods tested. Basis set effects on the electronic energies and oscillator strengths were evaluated with 6-31G(d), 6-31+G(d), 6-31+G(d,p), and 6-311+G(d,p). The minimal basis set required was 6-31+G(d); however, additional calculations were performed with 6-311+G(d,p). For each molecule studied, the natural transition orbitals (NTOs) were reported for the most prominent singlet excitations. The TD-DFT results have been combined with the IPv calculated by CBS-QB3 to construct energy level diagrams for the six compounds. The results suggest optimization approaches for fluorescence based detection methods for these explosives by guiding materials selections for optimal band alignment between fluorescent probe and explosive analyte. Also, the role of the TNT Meisenheimer complex formation and the resulting electronic structure thereof on of the quenching mechanism of II-VI semiconductors is discussed. PMID:23432018

  7. Experimental and TD-DFT study of optical absorption of six explosive molecules: RDX, HMX, PETN, TNT, TATP, and HMTD.

    PubMed

    Cooper, Jason K; Grant, Christian D; Zhang, Jin Z

    2013-07-25

    Time dependent density function theory (TD-DFT) has been utilized to calculate the excitation energies and oscillator strengths of six common explosives: RDX (1,3,5-trinitroperhydro-1,3,5-triazine), β-HMX (octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine), TATP (triacetone triperoxide), HMTD (hexamethylene triperoxide diamine), TNT (2,4,6-trinitrotoluene), and PETN (pentaerythritol tetranitrate). The results were compared to experimental UV-vis absorption spectra collected in acetonitrile. Four computational methods were tested including: B3LYP, CAM-B3LYP, ωB97XD, and PBE0. PBE0 outperforms the other methods tested. Basis set effects on the electronic energies and oscillator strengths were evaluated with 6-31G(d), 6-31+G(d), 6-31+G(d,p), and 6-311+G(d,p). The minimal basis set required was 6-31+G(d); however, additional calculations were performed with 6-311+G(d,p). For each molecule studied, the natural transition orbitals (NTOs) were reported for the most prominent singlet excitations. The TD-DFT results have been combined with the IPv calculated by CBS-QB3 to construct energy level diagrams for the six compounds. The results suggest optimization approaches for fluorescence based detection methods for these explosives by guiding materials selections for optimal band alignment between fluorescent probe and explosive analyte. Also, the role of the TNT Meisenheimer complex formation and the resulting electronic structure thereof on of the quenching mechanism of II-VI semiconductors is discussed.

  8. Theoretical and spectroscopic studies on molecular structure and hydrogen bonding of 2-trifluoroacetylphenol.

    PubMed

    Moosavi-Tekyeh, Zainab; Tayyari, Sayyed Faramarz

    2015-01-25

    The molecular structure, intramolecular hydrogen bonding, and vibrational frequencies of 2-trifluoroacetylphenol (TFAP), were investigated by means of density functional theory (DFT) calculations and NMR, IR, and Raman spectroscopy techniques. The calculated theoretical and observed experimental results were compared with the corresponding data for salicylaldehyde (SA). Calculations were performed at the B3LYP level, using 6-311++G(**) basis set. The observed vibrational frequencies of TFAP were assigned with aid of theoretical calculations. The scaled frequencies at the B3LYP/6-311++G(**) level are in good agreement with the corresponding observed values by acceptable deviations. To investigate the effect of CF3 group on the hydrogen bond strength, the charge distributions, steric effects, and electron delocalization in TFAP and SA are studied using the natural bond orbital (NBO) analysis. The computations were further complemented with an atoms-in-molecules (AIM) topological analysis to characterize the nature of the intramolecular hydrogen bond, IHB, in the considered molecules. The contradiction between experimental and theoretical results was interpreted by considering the opposite effects of steric effect and electron withdrawing nature of CF3 group.

  9. Hydroxyl Radical (OH•) Reaction with Guanine in an Aqueous Environment: A DFT Study

    PubMed Central

    Kumar, Anil; Pottiboyina, Venkata; Sevilla, Michael D.

    2011-01-01

    The reaction of hydroxyl radical (OH•) with DNA accounts for about half of radiation-induced DNA damage in living systems. Previous literature reports point out that the reaction of OH• with DNA proceeds mainly through the addition of OH• to the C=C bond of the DNA bases. However, recently it has been reported that the principal reaction of OH• with dGuo (deoxyguanosine) is the direct hydrogen atom abstraction from its exocyclic amine group rather than addition of OH• to the C=C bond. In the present work, these two reaction pathways of OH• attack on guanine (G) in the presence of water molecules (aqueous environment) are investigated using the density functional theory (DFT) B3LYP method with 6-31G* and 6-31++G** basis sets. The calculations show that the initial addition of the OH• at C4=C5 double bond of guanine is barrier free and the adduct radical (G-OH•) has only a small activation barrier of ca. 1 – 6 kcal/mol leading to the formation of a metastable ion-pair intermediate (G•+---OH−). The formation of ion-pair is a result of the highly oxidizing nature of the OH• in aqueous media. The resulting ion-pair (G•+---OH−) deprotonates to form H2O and neutral G radicals favoring G(N1-H)• with an activation barrier of ca. 5 kcal/mol. The overall process from the G(C4)-OH• (adduct) to G(N1-H)• and water is found to be exothermic in nature by more than 13 kcal/mol. (G-OH•), (G•+---OH−), and G(N1-H)• were further characterized by the CAM-B3LYP calculations of their UV-visible spectra and good agreement between theory and experiment is achieved. Our calculations for the direct hydrogen abstraction pathway from N1 and N2 sites of guanine by the OH• show that this is also a competitive route to produce G(N2-H)•, G(N1-H)• and H2O. PMID:22050033

  10. Hydroxyl radical (OH•) reaction with guanine in an aqueous environment: a DFT study.

    PubMed

    Kumar, Anil; Pottiboyina, Venkata; Sevilla, Michael D

    2011-12-22

    The reaction of hydroxyl radical (OH(•)) with DNA accounts for about half of radiation-induced DNA damage in living systems. Previous literature reports point out that the reaction of OH(•) with DNA proceeds mainly through the addition of OH(•) to the C═C bonds of the DNA bases. However, recently it has been reported that the principal reaction of OH(•) with dGuo (deoxyguanosine) is the direct hydrogen atom abstraction from its exocyclic amine group rather than addition of OH(•) to the C═C bonds. In the present work, these two reaction pathways of OH(•) attack on guanine (G) in the presence of water molecules (aqueous environment) are investigated using the density functional theory (DFT) B3LYP method with 6-31G* and 6-31++G** basis sets. The calculations show that the initial addition of the OH(•) at C(4)═C(5) double bond of guanine is barrier free and the adduct radical (G-OH(•)) has only a small activation barrier of ca. 1-6 kcal/mol leading to the formation of a metastable ion-pair intermediate (G(•+)---OH(-)). The formation of ion-pair is a result of the highly oxidizing nature of the OH(•) in aqueous media. The resulting ion-pair (G(•+)---OH(-)) deprotonates to form H(2)O and neutral G radicals favoring G(N(1)-H)(•) with an activation barrier of ca. 5 kcal/mol. The overall process from the G(C(4))-OH(•) (adduct) to G(N(1)-H)(•) and water is found to be exothermic in nature by more than 13 kcal/mol. (G-OH(•)), (G(•+)---OH(-)), and G(N(1)-H)(•) were further characterized by the CAM-B3LYP calculations of their UV-vis spectra and good agreement between theory and experiment is achieved. Our calculations for the direct hydrogen abstraction pathway from N(1) and N(2) sites of guanine by the OH(•) show that this is also a competitive route to produce G(N(2)-H)(•), G(N(1)-H)(•) and H(2)O.

  11. Hydrolytic activity of vanadate toward serine-containing peptides studied by kinetic experiments and DFT theory.

    PubMed

    Ho, Phuong Hien; Mihaylov, Tzvetan; Pierloot, Kristine; Parac-Vogt, Tatjana N

    2012-08-20

    Hydrolysis of dipeptides glycylserine (Gly-Ser), leucylserine (Leu-Ser), histidylserine (His-Ser), glycylalanine (Gly-Ala), and serylglycine (Ser-Gly) was examined in vanadate solutions by means of (1)H, (13)C, and (51)V NMR spectroscopy. In the presence of a mixture of oxovanadates, the hydrolysis of the peptide bond in Gly-Ser proceeds under the physiological pH and temperature (37 °C, pD 7.4) with a rate constant of 8.9 × 10(-8) s(-1). NMR and EPR spectra did not show evidence for the formation of paramagnetic species, excluding the possibility of V(V) reduction to V(IV) and indicating that the cleavage of the peptide bond is purely hydrolytic. The pD dependence of k(obs) exhibits a bell-shaped profile, with the fastest hydrolysis observed at pD 7.4. Combined (1)H, (13)C, and (51)V NMR experiments revealed formation of three complexes between Gly-Ser and vanadate, of which only one complex, designated Complex 2, formed via coordination of amide oxygen and amino nitrogen to vanadate, is proposed to be hydrolytically active. Kinetic experiments at pD 7.4 performed by using a fixed amount of Gly-Ser and increasing amounts of Na(3)VO(4) allowed calculation of the formation constant for the Gly-Ser/VO(4)(3-) complex (K(f) = 16.1 M(-1)). The structure of the hydrolytically active Complex 2 is suggested also on the basis of DFT calculations. The energy difference between Complex 2 and the major complex detected in the reaction mixture, Complex 1, is calculated to be 7.1 kcal/mol in favor of the latter. The analysis of the molecular properties of Gly-Ser and their change upon different modes of coordination to the vanadate pointed out that only in Complex 2 the amide carbon is suitable for attack by the hydroxyl group in the Ser side chain, which acts as an effective nucleophile. The origin of the hydrolytic activity of vanadate is most likely a combination of the polarization of amide oxygen in Gly-Ser due to the binding to vanadate, followed by the intramolecular

  12. Electronic structure investigations of 4-aminophthal hydrazide by UV-visible, NMR spectral studies and HOMO-LUMO analysis by ab initio and DFT calculations.

    PubMed

    Sambathkumar, K; Jeyavijayan, S; Arivazhagan, M

    2015-08-01

    Combined experimental and theoretical studies were conducted on the molecular structure and vibrational spectra of 4-AminoPhthalhydrazide (APH). The FT-IR and FT-Raman spectra of APH were recorded in the solid phase. The molecular geometry and vibrational frequencies of APH in the ground state have been calculated by using the ab initio HF (Hartree-Fock) and density functional methods (B3LYP) invoking 6-311+G(d,p) basis set. The optimized geometric bond lengths and bond angles obtained by HF and B3LYP method show best agreement with the experimental values. Comparison of the observed fundamental vibrational frequencies of APH with calculated results by HF and density functional methods indicates that B3LYP is superior to the scaled Hartree-Fock approach for molecular vibrational problems. The difference between the observed and scaled wave number values of most of the fundamentals is very small. A detailed interpretation of the NMR spectra of APH was also reported. The theoretical spectrograms for infrared and Raman spectra of the title molecule have been constructed. UV-vis spectrum of the compound was recorded and the electronic properties, such as HOMO and LUMO energies, were performed by time dependent density functional theory (TD-DFT) approach. Finally the calculations results were applied to simulated infrared and Raman spectra of the title compound which show good agreement with observed spectra. And the temperature dependence of the thermodynamic properties of constant pressure (Cp), entropy (S) and enthalpy change (ΔH0→T) for APH were also determined. PMID:25829160

  13. Conformational stability and thermal pathways of relaxation in triclosan (antibacterial/excipient/contaminant) in solid-state: combined spectroscopic ((1)H NMR) and computational (periodic DFT) study.

    PubMed

    Latosińska, Jolanta Natalia; Latosińska, Magdalena; Tomczak, Marzena Agnieszka; Medycki, Wojciech

    2015-05-21

    The mechanism of molecular dynamics in the antibacterial/antifungal agent, triclosan (5-chloro-2-(2',4'-dichlorophenoxy)-phenol), in solid state was studied by (1)H NMR spectroscopy and periodic density functional theory (DFT) calculations. Temperature dependencies of the proton spin-lattice relaxation time (T1) in the ranges 86-293 and 90-250 K (at 15 and 24.667 MHz, respectively) and the second moment (M2) of the (1)H NMR resonant line in the range 103-300 K were measured. Two minima in the temperature dependence of T1 revealed a classical Arrhenius governed activation processes. The low temperature shallow minimum T1(T) of 71 s at 115 K, 15 MHz, which shifts with frequency, was assigned to classical hindered jumps of hydroxyl group around OC axis and with respect to a 5-chloro-2-phenol ring. The activation energy of this motion estimated on the basis of the fit of the theoretical model to the experimental points is 9.68 kJ/mol. The pointed high temperature minimum T1(T) of 59 s at 190 K, 15 MHz, which also shifts with frequency, was assigned to the small angle librations by Θlib= ± 9° between two positions of equilibrium differing in energy by 7.42 kJ/mol. The activation energy of this motion estimated on the basis of the fit of the theoretical model to the experimental points is 31.1 kJ/mol. Both motions result in a negligible reduction in the (1)H NMR line second moment, thus the second moment delivers an irrelevant description of the molecular motions in triclosan.

  14. DFT OPTIMIZATION STUDIES OF ALPHA-MALTOSE: ISO-ENERGETIC AND INTERNAL COORDINATE CONTOUR MAPS UPON ROTATION ABOUT THE GLYCOSIDIC BONDS

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The disaccharide alpha-maltose is a molecular template for amylose. Our previous DFT work on maltose is expanded to a set of 63 fully optimized (B3LYP/6-311++G**) conformations. All clockwise, and counter clockwise hydroxyl groups, as well as 'kink' and band-slip conformers, are studied. Adiabati...

  15. Electronic and optical response of functionalized Ru(II) complexes: joint theoretical and experimental study

    SciTech Connect

    Kilina, Svetlana; Tretiak, Sergei; Sykora, Milan; Albert, Victor; Badaeva, Ekaterina; Koposov, Alexey

    2008-01-01

    New photovoltaic and photocatalysis applications have been recently proposed based on the hybrid Ru(II)-bipyridine-complex/semiconductor quantum dot systems. In order to attach the Ru(II) complex to the surface of a semiconductor, a linking bridge -- a carboxyl group -- needs to be added to one or two of the 2,2'-bipyridine (bpy) ligands. Such changes in the ligand structure affect electronic and optical properties and, consequently, the charge transfer reactivity of Ru(II)-systems. In this study, we analyze the effects brought by functionalization of bipyridine ligands with the methyl, carboxyl, and carboxilate groups on the electronic structure and optical response of the [Ru(bpy){sub 3}]{sup 2+} complex. First principle calculations based on density functional theory (DFT) and time dependent DFT (TDDFT) are used to simulate the ground and excited-state properties, respectively, of functionalized Ru-complexes in the gas phase and acetonitrile solution. In addition, an effective Frenkel exciton model is used to explain the optical activity and splitting patterns of the low-energy excited states in all molecules. All theoretical results nicely complement and allow for detailed interpretation of experimental absorption spectra of Ru-complexes that have been done in parallel with our theoretical investigations. We found that the carboxyl group breaks the degeneracy of two low-energy optically bright excited states and red-shifts the absorption spectrum, while leaves ionization and affinity energies of complexes almost unchanged. Experimental studies show that deprotonation of the carboxyl group in the Ru-complexes results in a slight blue shift and decrease of oscillator strengths of the low energy absorption peaks. Comparison of experimental and theoretical linear response spectra of deprotonated complexes demonstrate strong agreement if the theoretical calculations are performed with the addition of a dielectric continuum model. A polar solvent is found to play an

  16. Theoretical & Experimental Studies of Elementary Particles

    SciTech Connect

    McFarland, Kevin

    2012-10-04

    Abstract High energy physics has been one of the signature research programs at the University of Rochester for over 60 years. The group has made leading contributions to experimental discoveries at accelerators and in cosmic rays and has played major roles in developing the theoretical framework that gives us our ``standard model'' of fundamental interactions today. This award from the Department of Energy funded a major portion of that research for more than 20 years. During this time, highlights of the supported work included the discovery of the top quark at the Fermilab Tevatron, the completion of a broad program of physics measurements that verified the electroweak unified theory, the measurement of three generations of neutrino flavor oscillations, and the first observation of a ``Higgs like'' boson at the Large Hadron Collider. The work has resulted in more than 2000 publications over the period of the grant. The principal investigators supported on this grant have been recognized as leaders in the field of elementary particle physics by their peers through numerous awards and leadership positions. Most notable among them is the APS W.K.H. Panofsky Prize awarded to Arie Bodek in 2004, the J.J. Sakurai Prizes awarded to Susumu Okubo and C. Richard Hagen in 2005 and 2010, respectively, the Wigner medal awarded to Susumu Okubo in 2006, and five principal investigators (Das, Demina, McFarland, Orr, Tipton) who received Department of Energy Outstanding Junior Investigator awards during the period of this grant. The University of Rochester Department of Physics and Astronomy, which houses the research group, provides primary salary support for the faculty and has waived most tuition costs for graduate students during the period of this grant. The group also benefits significantly from technical support and infrastructure available at the University which supports the work. The research work of the group has provided educational opportunities for graduate students

  17. Theoretical Studies of Hydrogen Storage Alloys.

    SciTech Connect

    Jonsson, Hannes

    2012-03-22

    Theoretical calculations were carried out to search for lightweight alloys that can be used to reversibly store hydrogen in mobile applications, such as automobiles. Our primary focus was on magnesium based alloys. While MgH{sub 2} is in many respects a promising hydrogen storage material, there are two serious problems which need to be solved in order to make it useful: (i) the binding energy of the hydrogen atoms in the hydride is too large, causing the release temperature to be too high, and (ii) the diffusion of hydrogen through the hydride is so slow that loading of hydrogen into the metal takes much too long. In the first year of the project, we found that the addition of ca. 15% of aluminum decreases the binding energy to the hydrogen to the target value of 0.25 eV which corresponds to release of 1 bar hydrogen gas at 100 degrees C. Also, the addition of ca. 15% of transition metal atoms, such as Ti or V, reduces the formation energy of interstitial H-atoms making the diffusion of H-atoms through the hydride more than ten orders of magnitude faster at room temperature. In the second year of the project, several calculations of alloys of magnesium with various other transition metals were carried out and systematic trends in stability, hydrogen binding energy and diffusivity established. Some calculations of ternary alloys and their hydrides were also carried out, for example of Mg{sub 6}AlTiH{sub 16}. It was found that the binding energy reduction due to the addition of aluminum and increased diffusivity due to the addition of a transition metal are both effective at the same time. This material would in principle work well for hydrogen storage but it is, unfortunately, unstable with respect to phase separation. A search was made for a ternary alloy of this type where both the alloy and the corresponding hydride are stable. Promising results were obtained by including Zn in the alloy.

  18. Self-catalyzed syntheses, structural characterization, DPPH radical scavenging-, cytotoxicity-, and DFT studies of phenoxyaliphatic acids of 1,8-dioxo-octahydroxanthene derivatives

    NASA Astrophysics Data System (ADS)

    Suresh Kumar, G. S.; Antony Muthu Prabhu, A.; Seethalashmi, P. G.; Bhuvanesh, N.; Kumaresan, S.

    2014-02-01

    One-pot, in-water syntheses of phenoxyaliphatic acids of 1,8-dioxo-octahydroxanthene derived from dimedone and formylphenoxyaliphatic acids are reported. Geometries of compounds 2b, 2c, and 5a have been examined crystallographically. The synthesized compounds showed better DPPH radical scavenging activity and cytotoxicity against A431 cancer cell line. The molecular properties of all synthesized xanthenes have been investigated using single crystal XRD and DFT method. Self-catalyzed Bronsted-Lowry acid catalytic behavior was also investigated by both experimental and theoretical methods.

  19. Kinetics and thermochemistry of hydrolysis mechanism of a novel anticancer agent trans-[PtCl2(dimethylamine)(isopropylamine)]: A DFT study

    NASA Astrophysics Data System (ADS)

    Hussain, Iftikar; Gour, N. K.; Deka, Ramesh Ch.

    2016-05-01

    Theoretical investigation has been made on the hydrolysis mechanism of a novel transplatin anticancer agent trans-[PtCl2(dimethylamine)(isopropylamine)] in gas as well as aqueous phases using DFT method. The transition state geometries along with other stationary points on potential energy surface are optimized and characterized. The calculated activation barrier and the predicted relative free energies for the two successive steps are in good agreement with the experimental data reported in the literature. The rate constants are calculated using Eyring equation and results show that the second step is the rate-limiting process having higher activation energy compared to that of the first step.

  20. Synthesis, biological and comparative DFT studies on Ni(II) complexes of NO and NOS donor ligands

    NASA Astrophysics Data System (ADS)

    Yousef, T. A.; El-Gammal, O. A.; Ahmed, Sara F.; Abu El-Reash, G. M.

    2015-01-01

    Three new NOS donor ligands have been prepared by addition ethanolic suspension of 2-hydrazino-2-oxo-N-phenyl-acetamide to phenyl isocyanate (H2PAPS), phenyl isothiocyanate (H2PAPT) and benzoyl isothiocyanate (H2PABT). The Ni(II) complexes prepared from the chloride salt and characterized by conventional techniques. The isolated complexes were assigned the formulaes, [Ni2(PAPS)(H2O)2](H2O)2, [Ni(H2PAPT)Cl2(H2O)](H2O)2 and [(Ni)2(HPABT)2Cl2(H2O)2], respectively. The IR spectra of complexes shows that H2PAPS behaves as a binegative pentadentate via both CO of hydrazide moiety in keto and enol form, enolized CO of cyanate moiety and the CN (azomethine) groups of enolization. H2PAPT behaves as neutral tridentate via both CO of hydrazide moiety and CN (azomethine) group due to SH formation and finally H2PABT behaves as mononegative tetradentate via CO and enolized CO of hydrazide moiety, CO of benzoyl moiety and Cdbnd S groups. The experimental IR spectra of ligands are compared with those obtained theoretically from DFT calculations. Also, the bond lengths, bond angles, HOMO (Highest Occupied Molecular Orbitals), LUMO (Lowest Unoccupied Molecular Orbital) and dipole moments have been calculated. The calculated HOMO-LUMO energy gap reveals that charge transfer occurs within the molecule. The theoretical values of binding energies indicate the higher stability of complexes than of ligands. Also, the kinetic and thermodynamic parameters for the different thermal degradation steps of the complexes were determined by Coats-Redfern and Horowitz-Metzger methods. The antibacterial activities were also tested against B. Subtilis and E. coli bacteria. The free ligands showed a higher antibacterial effect than their Ni(II) complexes. The antitumor activities of the Ligands and their Ni(II) complexes have been evaluated against liver (HePG2) and breast (MCF-7) cancer cells. All ligands were found to display cytotoxicity that are better than that of Fluorouracil (5-FU), while Ni

  1. Theoretical studies of electronically excited states

    SciTech Connect

    Besley, Nicholas A.

    2014-10-06

    Time-dependent density functional theory is the most widely used quantum chemical method for studying molecules in electronically excited states. However, excited states can also be computed within Kohn-Sham density functional theory by exploiting methods that converge the self-consistent field equations to give excited state solutions. The usefulness of single reference self-consistent field based approaches for studying excited states is demonstrated by considering the calculation of several types of spectroscopy including the infrared spectroscopy of molecules in an electronically excited state, the rovibrational spectrum of the NO-Ar complex, core electron binding energies and the emission spectroscopy of BODIPY in water.

  2. Comprehensive DFT study on molecular structures of Lewisites in support of the Chemical Weapons Convention

    NASA Astrophysics Data System (ADS)

    Saeidian, Hamid; Sahandi, Morteza

    2015-11-01

    The structure of all of Lewisite's stereoisomers has been examined by B3LYP/6-311++G(3df,3pd) calculations. The geometry analysis for trans Lewisite L1-1 shows that the calculated bond angles, bond distances and dipole moment have a satisfactory relation compared with experimental values. HOMO-LUMO analysis of Lewisites reveals that L1-2 and L3-7 have the maximum and minimum electrophilicity index, respectively. The calculated chemical shifts were compared with experimental data, showing a very good agreement both for 1H and 13C. The vibrational and Raman frequencies of Lewisites have been precisely assigned and theoretical data were compared with the experimental vibrations. The bonding trends and Mulliken and atomic polar tensor charge distribution in Lewisites can be explained by the Bent's rule and the donor-acceptor interaction, respectively.

  3. Theoretical Frameworks for Studying Female Marriage Migrants

    ERIC Educational Resources Information Center

    Merali, Noorfarah

    2008-01-01

    Transnational marriages account for a significant proportion of family-based immigration to North America. An increasing number of immigrant men are choosing to marry women from their countries of origin, and an increasing number of nonimmigrant men are choosing to marry women from other countries. Existing studies on the experiences of foreign…

  4. A theoretical study of aerodynamic noise generation

    NASA Technical Reports Server (NTRS)

    Peter, A. C.

    1973-01-01

    Study focuses on physical mechanism of waves in fluid such as air. Strong interaction between energy of wave and fluid particle motion causes energy of wave to be dissipated. Dissipation depends not only on momentum, time-rate, and force, but also upon nature and magnitude of entropic-flow effects.

  5. Theoretical study of a molecular turbine.

    PubMed

    Perez-Carrasco, R; Sancho, J M

    2013-10-01

    We present an analytic and stochastic simulation study of a molecular engine working with a flux of particles as a turbine. We focus on the physical observables of velocity, flux, power, and efficiency. The control parameters are the external conservative force and the particle densities. We revise a simpler previous study by using a more realistic model containing multiple equidistant vanes complemented by stochastic simulations of the particles and the turbine. Here we show that the effect of the thermal fluctuations into the flux and the efficiency of these nanometric devices are relevant to the working scale of the system. The stochastic simulations of the Brownian motion of the particles and turbine support the simplified analytical calculations performed. PMID:24229211

  6. Theoretical study of a molecular turbine.

    PubMed

    Perez-Carrasco, R; Sancho, J M

    2013-10-01

    We present an analytic and stochastic simulation study of a molecular engine working with a flux of particles as a turbine. We focus on the physical observables of velocity, flux, power, and efficiency. The control parameters are the external conservative force and the particle densities. We revise a simpler previous study by using a more realistic model containing multiple equidistant vanes complemented by stochastic simulations of the particles and the turbine. Here we show that the effect of the thermal fluctuations into the flux and the efficiency of these nanometric devices are relevant to the working scale of the system. The stochastic simulations of the Brownian motion of the particles and turbine support the simplified analytical calculations performed.

  7. Theoretical Study on Vibrational Dynamics of Cupredoxin

    NASA Astrophysics Data System (ADS)

    Sugiyama, A.; Saito, H.; Yoshimoto, T.; Nagao, H.; Sakurai, T.; Nishikawa, K.

    2004-04-01

    Azurin is a relatively small metalloprotein of the mononuclear blue copper protein found in plants and bacteria. In this study, we investigate the vibrational motion of the active site of azurin by molecular dynamics (MD) calculations and estimatethe Resonance Raman(RR) spectrum of azurin from the analysis of the time correlation function, and compare the experimentally measured RR spectrum with one obtained from MD calculations.

  8. Theoretical Study of White Dwarf Double Stars

    NASA Astrophysics Data System (ADS)

    Hira, Ajit; Koetter, Ted; Rivera, Ruben; Diaz, Juan

    2015-04-01

    We continue our interest in the computational simulation of the astrophysical phenomena with a study of gravitationally-bound binary stars, composed of at least one white dwarf star. Of particular interest to astrophysicists are the conditions inside a white dwarf star in the time frame leading up to its explosive end as a Type Ia supernova, for an understanding of the massive stellar explosions. In addition, the studies of the evolution of white dwarfs could serve as promising probes of theories of gravitation. We developed FORTRAN computer programs to implement our models for white dwarfs and other stars. These codes allow for different sizes and masses of stars. Simulations were done in the mass interval from 0.1 to 2.0 solar masses. Our goal was to obtain both atmospheric and orbital parameters. The computational results thus obtained are compared with relevant observational data. The data are further analyzed to identify trends in terms of sizes and masses of stars. We hope to extend our computational studies to blue giant stars in the future. Research Supported by National Science Foundation.

  9. Theoretical study on stability of hybrid bilayers

    NASA Astrophysics Data System (ADS)

    Silva, Thiago S.; de Lima Bernardo, Bertúlio; Azevedo, Sèrgio

    2015-04-01

    Motivated by the recent experimental realization of the hybrid nanostructure of graphene and boron nitride (h-BN) sheet, and studies of gap modulation by strain, we use first principles calculations based on density functional theory to investigate the effects of strain in hybrid bilayers composed of two monolayers of graphene with a nanodomain of {{B}3}{{N}3}. The calculations were made with two different approximations for the functional exchange-correlation, GGA and VDW-DF. We investigate the modification in the electronic structure and structural properties of various configurations of the hybrid bilayers. Among the configurations, those with Bernal stacking are found to be more stable when compared to the others. Studies of the compressive strain influence were made only in the structure that has been shown to be the most stable. We have found that the two approximations used in the calculations exhibit the same results for the electronic properties of all structures. The opening of the energy gap due to strain was possible in the calculations by using the GGA approximation, but the same does not happen in the calculations using the VDW-DF approximation. Our analysis shows that the VDW-DF approximation is better suited for studies involving surfaces.

  10. Experimental and theoretical study on the structure and optical properties of 2-acyl-1,3-indandiones - Conformational effects

    NASA Astrophysics Data System (ADS)

    Ahmedova, Anife; Pavlović, Gordana; Zhiryakova, Diana; Šišak, Dubravka; Stoyanov, Neyko; Springborg, Michael; Mitewa, Mariana

    2010-09-01

    A series of six 2-acyl-1,3-indandione derivatives is studied by means of experimental (single crystal X-ray diffraction, NMR, electron absorption and emission spectroscopy) and theoretical methods (HF, DFT and TD-DFT). All possible tautomers and rotamers are described quantum-chemically on the basis of their structure, energy and optical properties. Although the heterocyclic substituent may easily rotate about a C-C bond, according to the calculated energies, the conformation in the most stable gas-phase optimized structures is the same as in the crystalline form. These results suggest that the intermolecular interactions are very weak compared to the intramolecular ones, like strong intramolecular hydrogen bonding and π-electron delocalization. Therefore, a good account of the experimental results was obtained theoretically by considering only the conformational modes of the isolated molecules in ground and excited states. The experimentally observed spectra of the studied series of compounds are characterized by very strong absorption in the visible region and weak fluorescence showing moderate to strong Stokes shift.

  11. An experimental and theoretical study of the synthesis and vibrational spectroscopy of triacetone triperoxide (TATP)

    NASA Astrophysics Data System (ADS)

    Pacheco-Londono, Leonardo C.; Pena, Alvaro J.; Primera-Pedrozo, Oliva M.; Hernandez-Rivera, Samuel P.; Mina, Nairmen; Garcia, Rafael; Chamberlain, R. Thomas; Lareau, Richard T.

    2004-09-01

    Non nitrogen containing, organic peroxides explosives Triacetone triperoxide and diacetone diperoxide have been prepared in the laboratory in order to study various aspects of their synthesis and their experimental and theoretical spectroscopic characteristics. By using different proportions of acetone/hydrogen peroxide (Ac/H2O2), sulfuric, hydrochloric and methanosulfuric acids as catalyzers, it was possible to obtain both compounds in a rapid and simple form. Raman, IR spectroscopy, and GC-MS were used in order to determine the precursors, intermediates and final analytes. Experiments and theoretical studies using density functional theory (DFT) have been used in the elucidation step of the mechanism of the synthesis of the so called "transparent" explosives. The B3LYP functional with the 6-31G** basis set was used to carry out the electronic structure calculation of the intermediates and internal rotations and vibrations of TATP. Raman spectra of solid TATP and FTIR spectra of gas TATP, were recorded in order to assign the experimental spectra. Although full agreement with experiment was not obtained, spectral features of the main TATP bands were assigned.

  12. DNA bases assembled on the Au(110)/electrolyte interface: a combined experimental and theoretical study.

    PubMed

    Salvatore, Princia; Nazmutdinov, Renat R; Ulstrup, Jens; Zhang, Jingdong

    2015-02-19

    Among the low-index single-crystal gold surfaces, the Au(110) surface is the most active toward molecular adsorption and the one with fewest electrochemical adsorption data reported. Cyclic voltammetry (CV), electrochemically controlled scanning tunneling microscopy (EC-STM), and density functional theory (DFT) calculations have been employed in the present study to address the adsorption of the four nucleobases adenine (A), cytosine (C), guanine (G), and thymine (T), on the Au(110)-electrode surface. Au(110) undergoes reconstruction to the (1 × 3) surface in electrochemical environment, accompanied by a pair of strong voltammetry peaks in the double-layer region in acid solutions. Adsorption of the DNA bases gives featureless voltammograms with lower double-layer capacitance, suggesting that all the bases are chemisorbed on the Au(110) surface. Further investigation of the surface structures of the adlayers of the four DNA bases by EC-STM disclosed lifting of the Au(110) reconstruction, specific molecular packing in dense monolayers, and pH dependence of the A and G adsorption. DFT computations based on a cluster model for the Au(110) surface were performed to investigate the adsorption energy and geometry of the DNA bases in different adsorbate orientations. The optimized geometry is further used to compute models for STM images which are compared with the recorded STM images. This has provided insight into the physical nature of the adsorption. The specific orientations of A, C, G, and T on Au(110) and the nature of the physical adsorbate/surface interaction based on the combination of the experimental and theoretical studies are proposed, and differences from nucleobase adsorption on Au(111)- and Au(100)-electrode surfaces are discussed.

  13. Theoretical spectroscopic study of seven zinc(II) complex with macrocyclic Schiff-base ligand.

    PubMed

    Sayin, Koray; Kariper, Sultan Erkan; Sayin, Tuba Alagöz; Karakaş, Duran

    2014-12-10

    Seven zinc complexes, which are [ZnL(1)](2+), [ZnL(2)](2+), [ZnL(3)](2+), [ZnL(4)](2+), [ZnL(5)](2+), [ZnL(6)](2+) and [ZnL(7)](2+), are studied as theoretically. Structural parameters, vibration frequencies, electronic absorption spectra and (1)H and (13)C NMR spectra are obtained for Zn(II) complexes of macrocyclic penta and heptaaza Schiff-base ligand. Vibration spectra of Zn(II) complexes are studied by using Density Functional Theory (DFT) calculations at the B3LYP/LANL2DZ. The UV-VIS and NMR spectra of the zinc complexes are obtained by using Time Dependent-Density Functional Theory (TD-DFT) method and Giao method, respectively. The agreements are found between experimental data of [ZnL(5)](2+), [ZnL(6)](2+) and [ZnL(7)](2+) complex ions and their calculated results. The geometries of complexes are found as distorted pentagonal planar for [ZnL(1)](2+), [ZnL(2)](2+) and [ZnL(3)](2+) complex ions, distorted tetrahedral for [ZnL(4)](2+) complex ion and distorted pentagonal bipyramidal for [ZnL(5)](2+), [ZnL(6)](2+) and [ZnL(7)](2+) complex ions. Ranking of biological activity is determined by using quantum chemical parameters and this ranking is found as: [ZnL(7)](2+)>[ZnL(6)](2+)>[ZnL(5)](2+)>[ZnL(3)](2+)>[ZnL(2)](2+)>[ZnL(1)](2+). PMID:24967540

  14. Nanostructured copper/copper oxide hybrids: combined experimental and theoretical studies.

    PubMed

    Li, Jie; Yu, Nana; Geng, Haoran

    2016-08-21

    With the extensive study of dealloying, copper oxides have been shown to be important members and exhibit huge potential in catalysis, energy transformation and storage fields. In this work, nanostructured copper/copper oxide hybrids were prepared through dealloying the sintered Al85Cu15 alloy and molecular dynamics (MD) simulations as well as calculations based on density functional theory (DFT) were performed to explore the oxidation mechanisms of copper in aqueous electrolytes. Cu/Cu2O/CuO compositions were obtained after immersing the sintered alloys in 20 wt% NaOH solutions under corrosion-free conditions at room temperature. Both X-ray diffraction (XRD) and potentiodynamic polarization results reveal that there exist large differences between the sintered Al85Cu15 alloy and its counterpart cast alloy and the Rietveld simulation analysis as well as MD simulations testify to the inhomogeneous atom distribution in the sintered alloy. DFT studies show that Cun (1 ≤n≤ 9) clusters possess higher surface energies than the Cu(111) surface and the calculated binding energies of the copper clusters and an atomic oxygen (Cun-O) are much higher than that of Cu(111)-O. The low surface diffusivity (Ds) of the clusters at the alloy-electrolyte interface extends their diffusion time, which may be beneficial to the formation and growth of oxide nuclei precursors during the dealloying process. Their microstructures and morphologies characterized by scanning electron microscopy (SEM) and transmission electron microscopy (TEM) show that CuO exists in the form of a nanoplate while Cu2O is a nanoparticle. Nanoporous copper (NPC) obtained by dealloying sintered and cast alloys exists in the form of a bicontinuous ligament-channel structure. This work enriches the dealloying research from both experimental and theoretical aspects. PMID:27425769

  15. DNA bases assembled on the Au(110)/electrolyte interface: a combined experimental and theoretical study.

    PubMed

    Salvatore, Princia; Nazmutdinov, Renat R; Ulstrup, Jens; Zhang, Jingdong

    2015-02-19

    Among the low-index single-crystal gold surfaces, the Au(110) surface is the most active toward molecular adsorption and the one with fewest electrochemical adsorption data reported. Cyclic voltammetry (CV), electrochemically controlled scanning tunneling microscopy (EC-STM), and density functional theory (DFT) calculations have been employed in the present study to address the adsorption of the four nucleobases adenine (A), cytosine (C), guanine (G), and thymine (T), on the Au(110)-electrode surface. Au(110) undergoes reconstruction to the (1 × 3) surface in electrochemical environment, accompanied by a pair of strong voltammetry peaks in the double-layer region in acid solutions. Adsorption of the DNA bases gives featureless voltammograms with lower double-layer capacitance, suggesting that all the bases are chemisorbed on the Au(110) surface. Further investigation of the surface structures of the adlayers of the four DNA bases by EC-STM disclosed lifting of the Au(110) reconstruction, specific molecular packing in dense monolayers, and pH dependence of the A and G adsorption. DFT computations based on a cluster model for the Au(110) surface were performed to investigate the adsorption energy and geometry of the DNA bases in different adsorbate orientations. The optimized geometry is further used to compute models for STM images which are compared with the recorded STM images. This has provided insight into the physical nature of the adsorption. The specific orientations of A, C, G, and T on Au(110) and the nature of the physical adsorbate/surface interaction based on the combination of the experimental and theoretical studies are proposed, and differences from nucleobase adsorption on Au(111)- and Au(100)-electrode surfaces are discussed. PMID:25611676

  16. Nanostructured copper/copper oxide hybrids: combined experimental and theoretical studies.

    PubMed

    Li, Jie; Yu, Nana; Geng, Haoran

    2016-08-21

    With the extensive study of dealloying, copper oxides have been shown to be important members and exhibit huge potential in catalysis, energy transformation and storage fields. In this work, nanostructured copper/copper oxide hybrids were prepared through dealloying the sintered Al85Cu15 alloy and molecular dynamics (MD) simulations as well as calculations based on density functional theory (DFT) were performed to explore the oxidation mechanisms of copper in aqueous electrolytes. Cu/Cu2O/CuO compositions were obtained after immersing the sintered alloys in 20 wt% NaOH solutions under corrosion-free conditions at room temperature. Both X-ray diffraction (XRD) and potentiodynamic polarization results reveal that there exist large differences between the sintered Al85Cu15 alloy and its counterpart cast alloy and the Rietveld simulation analysis as well as MD simulations testify to the inhomogeneous atom distribution in the sintered alloy. DFT studies show that Cun (1 ≤n≤ 9) clusters possess higher surface energies than the Cu(111) surface and the calculated binding energies of the copper clusters and an atomic oxygen (Cun-O) are much higher than that of Cu(111)-O. The low surface diffusivity (Ds) of the clusters at the alloy-electrolyte interface extends their diffusion time, which may be beneficial to the formation and growth of oxide nuclei precursors during the dealloying process. Their microstructures and morphologies characterized by scanning electron microscopy (SEM) and transmission electron microscopy (TEM) show that CuO exists in the form of a nanoplate while Cu2O is a nanoparticle. Nanoporous copper (NPC) obtained by dealloying sintered and cast alloys exists in the form of a bicontinuous ligament-channel structure. This work enriches the dealloying research from both experimental and theoretical aspects.

  17. Speciation of Adsorbed Phosphate at Gold Electrodes: A Combined Surface-Enhanced Infrared Absorption Spectroscopy and DFT Study.

    PubMed

    Yaguchi, Momo; Uchida, Taro; Motobayashi, Kenta; Osawa, Masatoshi

    2016-08-18

    Despite the significance of phosphate buffer solutions in (bio)electrochemistry, detailed adsorption properties of phosphate anions at metal surfaces remain poorly understood. Herein, phosphate adsorption at quasi-Au(111) surfaces prepared by a chemical deposition technique has been systematically investigated over a wide range of pH by surface-enhanced infrared absorption spectroscopy in the ATR configuration (ATR-SEIRAS). Two different pH-dependent states of adsorbed phosphate are spectroscopically detected. Together with DFT calculations, the present study reveals that pKa for adsorbed phosphate species at the interface is much lower than that for phosphate species in the bulk solution; the dominant phosphate anion, H2PO4(-) at 2 < pH < 7 or HPO4(2-) at 7 < pH < 12, undergoes deprotonation upon adsorption and transforms into the adsorbed HPO4 or PO4, respectively. This study leads to a conclusion different than earlier spectroscopic studies have reached, highlighting the capability of the ATR-SEIRAS technique at electrified metal-solution interfaces. PMID:27453430

  18. Ab initio and DFT studies on van der Waals trimers: the OCS.(CO2)2 complexes.

    PubMed

    Valdés, H; Sordo, J A

    2002-03-01

    Ab initio calculations [MP2, MP4SDTQ, and QCISD(T)] using different basis sets [6-31G(d,p), cc-pVXZ (X = D, T, Q), and aug-cc-pVDZ] and density functional theory [B3LYP/6-31G(d,p)] calculations were carried out to study the OCS.(CO2)2 van der Waals trimer. The DFT has proved inappropriate to the study of this type of systems where the dispersion forces are expected to play a relevant role. Three minima isomers (two noncyclic and one cyclic) were located and characterized. The most stable isomer exhibits a noncyclic barrel-like structure whose bond lengths, angles, rotational constants, and dipole moment agree quite well with the corresponding experimental values of the only structure observed in recent microwave spectroscopic studies. The energetic proximity of the three isomers, with stabilization energies of 1442, 1371, and 1307 cm-1, respectively, at the CBS-MP2/cc-pVXZ (X = D, T, Q) level, strongly suggests that the two unobserved structures should also be detected as in the case of the (CO2)3 trimer where both noncyclic and cyclic isomers have been reported to exist. The many-body symmetry-adapted perturbation theory is employed to analyze the nature of the interactions leading to the formation of the different structures. The three-body contributions are small and stabilizing for the two most stable structures and almost negligible for the cyclic isomer.

  19. Theoretical studies of a molecular beam generator

    NASA Technical Reports Server (NTRS)

    Heinbockel, John

    1994-01-01

    At present no adequate computer code exists for predicting the effects of thermal nonequilibrium on the flow quality of a converging-diverging N2 nozzle. It is the purpose of this research to develop such a code and then perform parametric studies to determine the effects of intermolecular forces (high gas pressure) and thermal nonequilibrium (the splitting of temperature into a vibrational and rotational-translational excitation) upon the flow quality. The two models to be compared are given. Appendix A contains nomenclature and additional relationships.

  20. Theoretical Studies of Lorentz and CPT Symmetry

    NASA Technical Reports Server (NTRS)

    Kostelecky, V. Alan

    2005-01-01

    The fundamental symmetries studied here are Lorentz and CPT invariance, which form a cornerstone of the relativistic quantum theories used in modern descriptions of nature. The results obtained during the reporting period focus on the idea, originally suggested by the P.I. and his group in the late 1980s, that observable CPT and Lorentz violation in nature might emerge from the qualitatively new physics expected to hold at the Planck scale. What follows is a summary of results obtained during the period of this grant.