The Pyrococcus abyssi genome displays two genes possibly coding for S-adenosyl-l-methionine-dependent RNA(uracil, C5)-methyltransferases (PAB0719 and PAB0760). Their amino acid sequences are more closely related to Escherichia coli RumA catalysing the formation of 5-methyluridine (m(5)U)-1939 in 23S rRNA than to E. coli TrmA (tRNA methyltransferase A) methylating uridine-54 in ...
PubMed
We show that Pyrococcus abyssi PAB2263 (dubbed NucS (nuclease for ss DNA) is a novel archaeal endonuclease that interacts with the replication clamp PCNA. Structural determination of P. abyssi NucS revealed a two-domain dumbbell-like structure that in overall does not resemble any known protein structure. Biochemical and structural studies indicate that ...
PubMed Central
The mechanisms by which hyperthermophilic Archaea, such as �Pyrococcus abyssi� and Pyrococcus furiosus, survive high doses of ionizing gamma irradiation are not thoroughly elucidated. Following gamma-ray irradiation at 2,500 Gy, the restoration of �P. abyssi� chromosomes took place within chromosome fragmentation. DNA synthesis in irradiated �P. ...
Faithful DNA replication involves the removal of RNA residues from genomic DNA prior to the ligation of nascent DNA fragments in all living organisms. Because the physiological roles of archaeal type 2 RNase H are not fully understood, the substrate structure requirements for the detection of RNase H activity need further clarification. Biochemical characterization of a single ...
A method of forming a virtual substrate comprised of an optoelectronic device substrate and handle substrate comprises the steps of initiating bonding of the device substrate to the handle substrate, improving or increasing the mechanical strength of the ...
National Technical Information Service (NTIS)
Branched DNA structures that occur during DNA repair and recombination must be efficiently processed by structure-specific endonucleases in order to avoid cell death. In the present paper, we summarize our screen for new interaction partners for the archaeal replication clamp that led to the functional characterization of a novel endonuclease family, dubbed NucS. Structural analyses of Pyrococcus ...
Archaea encode a DNA ligase composed of a C-terminal catalytic domain typical of ATP-dependent ligases plus an N-terminal domain similar to that found in eukaryotic cellular and poxvirus DNA ligases. All archaeal DNA ligases characterized to date have ATP-dependent adenylyltransferase and nick-joining activities. However, recent reports of dual-specificity ATP/NAD+ ligases ...
ATP synthesis at 100�C by an ATPase purified from the hyperthermophilic archaeon Pyrodictium abyssi. Federation of European Biochemcal Societies Letters, ...
NASA Website
The patent application discloses an improved chromogenic substrate for alpha-amylase assays. The substrate synthesized by reacting amylose with Cibachron Blue F3GA, sodium sulfate and trisodium phosphate and incubating the resultant dyed amylose substrate...
... Anodes made of stainless steel substrates with an electroplated coating of a ... substrates proved unacceptable as a possible anode material because ...
DTIC Science & Technology
... Title : Process for Improving the Quality of Epitaxial Silicon Films Grown on Insulating Substrates Utilizing Oxygen Ion Conductor Substrates. ...
The purpose of this contract is to effect a significant improvement in the quality and economics of sapphire substrates for thin film microassemblies. It is expected to achieve these results by producing larger diameter crystals of good internal quality, ...
A method of forming a virtual substrate comprised of an optoelectronic device substrate and handle substrate comprises the steps of initiating bonding of the device substrate to the handle substrate, improving or increasing the mechanical strength of the device and handle ...
DOEpatents
An improved additive process for metallization of substrates is described whereby a catalyst solution is applied to a surface of a substrate. Metallic catalytic clusters can be formed in the catalyst solution on the substrate surface by irradiating the substrate. Electroless plating can then ...
Energy Citations Database
An improved additive process for metallization of substrates is described whereby a catalyst solution is applied to a surface of a substrate. Metallic catalytic clusters can be formed in the catalyst solution on the substrate surface by heating the substrate. Electroless plating can then ...
A thin sputtered film that exhibits improved adherence to a substrate and has improved friction and wear characteristics is described. These improvements are achieved by coating the substrate by rf sputtering with a film of titanium carbide using an argon...
BackgroundProkaryotic microorganisms are able to survive and proliferate in severe environmental conditions. The increasing number of complete sequences of prokaryotic genomes has provided the basis for studying the molecular mechanisms of their adaptation at the genomic level. We apply here a computer-based approach to compare the genomes and proteomes from P. furiosus, P. horikoshii, and P. ...
BackgroundThe archaeal exosome is formed by a hexameric RNase PH ring and three RNA binding subunits and has been shown to bind and degrade RNA in vitro. Despite extensive studies on the eukaryotic exosome and on the proteins interacting with this complex, little information is yet available on the identification and function of archaeal exosome regulatory factors.ResultsHere, we show that the ...
Asparagine synthetase A (AsnA) catalyzes asparagine synthesis using aspartate, ATP, and ammonia as substrates. Asparagine is formed in two steps: the ?-carboxylate group of aspartate is first activated by ATP to form an aminoacyl-AMP before its amidation by a nucleophilic attack with an ammonium ion. Interestingly, this mechanism of amino acid activation resembles that used by ...
A heterostructure device layer is epitaxially grown on a virtual substrate, such as an InP/InGaAs/InP double heterostructure. A device substrate and a handle substrate form the virtual substrate. The device substrate is bonded to the handle substrate and is composed of a ...
The placement of substrate contacts in epi and non-epi technologies is analyzed in order to control and reduce the substrate noise amplitude and spreading. The choice of small or large substrate contacts or rings for each of the two major technologies is highlighted. Design guidelines for placing substrate contacts ...
E-print Network
Compressive epitactic layers grown on single-crystal substrates are shown to substantially improve mechanical durability. In this study, neodymium-substituted gadolinium gallium garnet (GGG) layers are grown on undoped GGG substrates. The layers are found to dramatically improve the abrasion resistance of the ...
The adhesion, friction and wear properties of sputtered refractory coatings on substrates of materials that form stable nitrides are enhanced by placing each substrate directly below a titanium carbide target of a commercial radiofrequency diode apparatus...
A process for applying a precisely uniform solid coating of fluid material onto solid substrate particles is described. The surface of the substrate material is smoothed by superficial fusion and rolling in a rotary drum, and multiple, thin, concentricall...
... on Novel Tantalum Carbide (TaC) Substrates for Improved Device Performance ... on Novel Tantalum Carbide (TaC) Substrates ...
Oct 23, 2001 ... the superior thermal properties of diamond as a substrate would improve the performance and reliability of the mounted VCSELs. ...
... combinations in the Tropical American Ctenitis (Tectariaceae)Alexandre Salino and Patr�cia Oliveira MoraisDepartamento de Bot�nica, Instituto de ... have combinations in that genus: Ctenitis abyssi (Sehne...
NBII National Biological Information Infrastructure
Protein splicing is a precise post-translational process mediated by inteins. Inteins are intervening proteins that cleave themselves from a precursor protein while joining the flanking sequences. Here we report the (15)N, (13)C, and (1)H chemical shift assignments of the intein from DNA polymerase II of Pyrococcus abyssi (Pab PolII intein), which has been recombinantly ...
A method for preparing a gallium arsenide substrate, prior to growing a layer of cadmium telluride on a support surface thereof. The preparation includes the steps of cleaning the gallium arsenide substrate and thereafter forming prepatterned shapes on th...
Nickel electrodes using fibrous substrates have poorer initial utilization of the active material than those using conventional nickel sinter substrates. Previous investigators had shown that utilization can be dramatically improved by dipping these elect...
The tRNA:m22G10 methyltransferase of Pyrococus abyssi (PAB1283, a member of COG1041) catalyzes the N2,N2-dimethylation of guanosine at position 10 in tRNA. Boundaries of its THUMP (THioUridine synthases, RNA Methyltransferases and Pseudo-uridine synthases)�containing N-terminal domain ...
A hyperthermophilic archaeon strain, KOD1, was isolated from a solfatara at a wharf on Kodakara Island, Kagoshima, Japan. The growth temperature of the strain ranged from 65 to 100 degrees C, and the optimal temperature was 95 degrees C. The anaerobic strain was an S0-dependent heterotroph. Cells were irregular cocci and were highly motile with several polar flagella. The membrane lipid was of the ...
Most bacteria and eukarya contain an enzyme capable of specifically hydrolyzing D-aminoacyl-tRNA. Here, the archaea Sulfolobus solfataricus is shown to also contain an enzyme activity capable of recycling misaminoacylated D-Tyr-tRNATyr. N-terminal sequencing of this enzyme identifies open reading frame SS02234 (dtd2), the product of which does not present any sequence homology with the known ...
In the Archaea only a handful of ribonucleases involved in RNA processing and degradation have been characterized. One potential group of archaeal ribonucleases are homologues of the bacterial RNase J family, which have a beta-CASP metallo-beta-lactamase fold. Here we show that beta-CASP proteins encoded in the genomes of the hyperthermophilic Euryarchaeota Pyrococcus abyssi ...
In the Archaea only a handful of ribonucleases involved in RNA processing and degradation have been characterized. One potential group of archaeal ribonucleases are homologues of the bacterial RNase J family, which have a ?-CASP metallo-?-lactamase fold. Here we show that ?-CASP proteins encoded in the genomes of the hyperthermophilic Euryarchaeota Pyrococcus abyssi and ...
A method for preparing a gallium arsenide substrate, prior to growing a layer of cadmium telluride on a support surface thereof. The preparation includes the steps of cleaning the gallium arsenide substrate and thereafter forming prepatterned shapes on the support surface of the gallium arsenide substrate. The layer of cadmium ...
DOE Information Bridge
ABSTRACT: BACKGROUND: The polymerase chain reaction (PCR) is commonly used to detect the presence of nucleic acid sequences both in research and diagnostic settings. While high specificity is often achieved, biological requirements sometimes require that primers are placed in suboptimal locations which lead to problems with the formation of primer dimers and/or misamplification of homologous ...
... In this improvement, unreacted substrate, ACh, is removed on Amberlite CG-120 resin suspended in p-dioxane, and according to the authors, the ...
... be to make films of highly impermeable polymers ... will be to introduce selective reactive groups within ... penetrant molecule such as oxygen, acid or ...
... and the fuel efficiency were improved by ... SUBSTRATES, IMPURITIES, HYDROGEN, IRON, ELECTRODES ... ELECTRIC POWER PRODUCTION AND ...
... source and nature of the granular coke, the source ... Starting with Run 7 the substrate tube consisted of an ... test section lay at the center of the furnace. ...
Page 1. Gallium nitride light emitter on a patterned sapphire substrate for improved defectivity and light extraction efficiency ...
... Title : Gallium Nitride Light Emitter on a Patterned Sapphire Substrate for Improved Defectivity and Light Extraction Efficiency. ...
... Abstract : Molecular imprinting involves the self-assembled complexation of a substrate to functional monomers to form a pre-polymer complex ...
... Abstract : Improved composite reverse osmosis membranes were prepared by separately optimizing the membrane substrate and the selective ...
... for the first round of fabrication. 5) We have received the quartz substrates and thus can start the trench etching process. ...
... and thus can start the trench etching process. ... LIFT, SHUNTS, ETCHING, SUBSTRATES, FABRICATION, SIMULATION, TRENCHES. ...
A post-polishing experiment was conducted to see if the wavefront performance of a volume-phase holographic grating with thin substrates could be improved. The ability to postpolish the grating assembly after production of the grating could lead to much improved imaging performance. The ability to use lower quality ...
NASA Astrophysics Data System (ADS)
Two aspects of lignocellulose bioprocessing are explored: the potential for using a lignin-degrading system to partially delignify substrates in order to improve polysaccharidase digestibility or to improve other properties; and the possibility of obtaini...
... CONFERENCE lox Improvement of Power Transmission over Free Space Using Integrated Antennas on Silicon Substrates* ...
Proteases have central roles in "life and death" processes due to their important ability to catalytically hydrolyze protein substrates, usually altering the function and/or activity of the target in the process. Knowledge of the substrate specificity of a protease should, in theory, dramatically improve the ability to predict target ...
This work is concerned with the metabolism of Caldithrix abyssi-an anaerobic, moderately thermophilic bacterium isolated from deep-sea hydrothermal vents of the Mid-Atlantic Ridge and representing a new, deeply deviated branch within the domain Bacteria. Cells of C. abyssi grown on acetate and nitrate, which was reduced to ammonium, possessed nitrate ...
BackgroundNoncoding RNA (ncRNA) has been recognized as an important regulator of gene expression networks in Bacteria and Eucaryota. Little is known about ncRNA in thermococcal archaea except for the eukaryotic-like C/D and H/ACA modification guide RNAs.ResultsUsing a combination of in silico and experimental approaches, we identified and characterized novel P. abyssi ncRNAs ...
This work reports the first isolation and characterization of an alkaline phosphatase (AP) from a hyperthermophilic archaeon. An AP gene from Pyrococcus abyssi, a euryarchaeon isolated from a deep-sea hydrothermal vent, was cloned and the enzyme expressed in Escherichia coli. Analysis of the sequence showed conservation of the active site and structural elements of the E. coli ...
The surface properties of a plastic substrate were changed by a novel surface treatment called atomic hydrogen annealing (AHA). In this method, a plastic substrate was exposed to atomic hydrogen generated by cracking hydrogen molecules on heated tungsten wire. For the substrate, surface roughness was increased and halogen elements (F ...
To improve angular resolution of high-throughput X-ray telescope using aluminum foil substrate, a multi-stage closed shell substrate is the key target of the development. For this purpose we have been developing two new fabrication methods to make very thin aluminum substrate. One is to use electron beam welding ...
A double substrate ``sandwiching'' structure has been designed and tested for molecular detection using surface enhanced Raman scattering (SERS). With silver (Ag) nanoparticles as SERS substrates and rhodamine 6G (R6G) as a test molecule, the results show that the ``sandwich'' configuration exhibits significantly higher SERS enhancement compared to just ...
Development of manufacturing infrastructure is required to ensure a commercial source of mask substrates for the timely introduction of EUVL. Improvements to the low thermal expansion materials that compose the substrate have been made, but need to be scaled to production quantities. We have been evaluating three challenging ...
An apparatus is described for sorbing a gas in a film upon a substrate. In operation, the substrate in cylindrical configuration is disposed around an elongated heat source bearing a sorber metal, undesired gases are removed, the sorber metal and substrate are degassed, the sorber metal is evaporated onto the ...
Graphene placed on a boron nitride (BN) substrate has been shown to result in increased mobility and improved Quantum Hall measurements. ootnotetextDean, CR et al. Boron nitride substrates for high-quality graphene electronics. Nature Nanotechnology 5, 722-726 (2010) It is therefore of great interest to understand how BN ...
An intein is a polypeptide that interrupts the functional domains of a protein, called the exteins. The intein can facilitate its own excision from the exteins, concomitant with the ligation of the exteins, in a process called protein splicing. The alpha subunit of the ribonucleotide reductase of the extreme thermophile Pyrococcus abyssi is interrupted by three inteins in ...
Protein splicing is a post-translational process by which an intervening polypeptide, the intein, excises itself from the flanking polypeptides, the exteins, coupled to ligation of the exteins. The lon protease of Pyrococcus abyssi (Pab) is interrupted by an intein. When over-expressed as a fusion protein in Escherichia coli, the Pab lon protease intein can promote efficient ...
BackgroundThe gene coding for the uncharacterized protein PAB1135 in the archaeon Pyrococcus abyssi is in the same operon as the ribonuclease P (RNase P) subunit Rpp30.FindingsHere we report the expression, purification and structural analysis of PAB1135. We analyzed the interaction of PAB1135 with RNA and show that it binds efficiently double-stranded RNAs in a non-sequence ...
