-- dump date 20140619_093613 -- class Genbank::CDS -- table cds_note -- id note YP_001691034.1 conjugal transfer protein YP_001691062.1 putative homolog of CAAX-like membrane endopeptidase YP_001691091.1 dUTP pyrophosphatase YP_001691098.1 phage-related YP_001691105.1 phage-related YP_001691118.1 putative recombinase YP_001691135.1 albumin-binding protein like protein L YP_001691338.1 the Vibrio parahaemolyticus gene VP2867 was found to be a potassium/proton antiporter; can rapidly extrude potassium against a potassium gradient at alkaline pH when cloned and expressed in Escherichia coli YP_001691358.1 Fe-S oxidoreductase YP_001691371.1 in Escherichia coli this enzyme functions in thiamine biosynthesis along with thiFSGI and iscS; with ThiFSG catalyzes the formation of thiazole phosphate from tyrosine, cysteine and 1-deoxy-D-xylulose-5-phosphate; forms a complex with ThiG; contains an iron-sulfur center YP_001691389.1 EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu YP_001691401.1 acts to load the DnaB helicase onto the initiation site during DNA replication YP_001691444.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis YP_001691463.1 binds directly near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit; essential for peptidyltransferase activity; mutations in this gene confer resistance to tiamulin YP_001691466.1 one of the primary rRNA-binding proteins; required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation YP_001691470.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_001691489.1 catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Dimerization of the alpha subunit is the first step in the sequential assembly of subunits to form the holoenzyme YP_001691492.1 primary rRNA binding protein; nucleates 30S assembly; involved in translational accuracy with proteins S5 and S12; interacts with protein S5; involved in autogeneously regulating ribosomal proteins by binding to pseudoknot structures in the polycistronic mRNA; interacts with transcription complex and functions similar to protein NusA in antitermination YP_001691507.1 permease protein YP_001691508.1 permease protein YP_001691554.1 acylaminoacyl-peptidase YP_001691606.1 DegV family protein YP_001691625.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive YP_001691632.1 transports degraded pectin products into the bacterial cell YP_001691644.1 Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents YP_001691654.1 RnfC/NqrF YP_001691655.1 RnfD/NqrB YP_001691656.1 RnfG/NqrC YP_001691657.1 RnfE/NqrD YP_001691658.1 RnfA/NqrE YP_001691659.1 RnfB/polyferredoxin YP_001691666.1 functions in MreBCD complex in some organisms YP_001691674.1 involved in the peptidyltransferase reaction during translation YP_001691692.1 phosphatase YP_001691702.1 converts 1,4-alpha-D-glucans to maltodextrin YP_001691706.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate YP_001691719.1 catalyzes the reduction of hydroxylamine to ammonia and water YP_001691722.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_001691724.1 flavin dependent thymidylate synthase; ThyX; thymidylate synthase complementing protein; catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate; the enzyme from Mycobacterium tuberculosis forms homotetramers; uses FAD as a cofactor YP_001691725.1 DegV family protein YP_001691736.1 GrdA accepts a carboxymethylselenoether from protein B and transfers it to protein C forming a protein C-bound acetyl-thioester; oxidized GrdA is then reduced by thioredoxin YP_001691743.1 GrdA accepts a carboxymethylselenoether from protein B and transfers it to protein C forming a protein C-bound acetyl-thioester; oxidized GrdA is then reduced by thioredoxin YP_001691749.1 catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate YP_001691764.1 catalyzes the formation of ornithine and carbamylphosphate from citrulline in the arginine catabolic pathway YP_001691770.1 aminomethyltransferase YP_001691773.1 acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; forms a heterodimer with subunit 1 to form the P protein YP_001691775.1 heat-shock protein YP_001691782.1 phosphoglyceromutase YP_001691789.1 superfamily II helicase YP_001691798.1 interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone; located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side; mutations in the S12 gene confer streptomycin resistance YP_001691799.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_001691801.1 EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu YP_001691808.1 catalyzes the release of the N-terminal amino acid from a tripeptide YP_001691829.1 aspartase YP_001691858.1 Veg protein YP_001691862.1 catalyzes the removal of amino acids from the N termini of peptides YP_001691877.1 this protein catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction; essential for DNA replication and repair of damaged DNA; similar to ligase LigB YP_001691883.1 methenyltetrahydrofolate cyclohydrolase YP_001691921.1 penicillin-binding protein 2 homolog YP_001691930.1 catalyzes a two-step reaction, first charging an asparagine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_001691931.1 leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase YP_001691934.1 Catalyzes a two-step reaction, first charging an alanyl molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_001691939.1 beta-lactamase superfamily YP_001691950.1 DegV family protein YP_001691965.1 Essential for recycling GMP and indirectly, cGMP YP_001691968.1 superfamily II helicase YP_001691972.1 SUN family YP_001691990.1 pyrophosphate-energized proton pump; pyrophosphate-energized inorganic pyrophosphatase; H+-PPase; can cleave pyrophosphate to two phosphates; can generate a proton motive force and drive pyrophosphate synthesis when PMF is sufficient YP_001691998.1 catalyzes a two-step reaction, first charging a histidine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class II aminoacyl-tRNA synthetase; forms homodimers; some organisms have a paralogous gene, hisZ, that is similar to hisS and produces a protein that performs the first step in histidine biosynthesis along with HisG YP_001691999.1 catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr) YP_001692016.1 Uridine monophosphate kinase YP_001692019.1 DNA binding and uptake YP_001692024.1 catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2 YP_001692028.1 aspartate transcarbamylase YP_001692029.1 involved in the allosteric regulation of aspartate carbamoyltransferase YP_001692031.1 type 2 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase YP_001692034.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate YP_001692038.1 peptidoglycan acetylation protein YP_001692057.1 site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs YP_001692059.1 PHP family YP_001692065.1 RecA YP_001692068.1 dUTPase YP_001692069.1 polynucleotide phosphorylase YP_001692092.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_001692098.1 catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate YP_001692108.1 catalyzes the formation of phosphoenolpyruvate from pyruvate YP_001692122.1 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step YP_001692133.1 dGTPase family type 2 subfamily; presumably hydrolyzes dGTP to deoxyguanosine and triphosphate YP_001692167.1 putative virulence factor YP_001692180.1 catalyzes the formation of asparagine from aspartate and ammonia YP_001692186.1 modulates transcription in response to the NADH/NAD(+) redox state YP_001692191.1 involved in the first step of tetrahydrofolate biosynthesis; catalyzes the formation of formate and 2-amino-4-hydroxy-6-(erythro-1,2, 3-trihydroxypropyl)dihydropteridine triphosphate from GTP and water; forms a homopolymer YP_001692198.1 Catalyzes a two-step reaction, first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_001692209.1 Excinuclease ABC subunit B; UvrB protein YP_001692251.1 Rlx-like protein YP_001692293.1 phage-related YP_001692299.1 CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer YP_001692302.1 putative cell-division protein YP_001692308.1 haloacid dehalogenase-like family YP_001692311.1 dnaE YP_001692324.1 catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP YP_001692330.1 BmrU family YP_001692353.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential YP_001692380.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the D subunit is part of the catalytic core of the ATP synthase complex YP_001692381.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the B subunit is part of the catalytic core of the ATP synthase complex YP_001692383.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the F subunit is part of the catalytic core of the ATP synthase complex YP_001692384.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the C subunit is part of the catalytic core of the ATP synthase complex YP_001692386.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the K subunit is a nonenzymatic component which binds the dimeric form by interacting with the G and E subunits YP_001692387.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit I is part of the membrane proton channel. YP_001692394.1 UDP-N- acetylmuramate dehydrogenase YP_001692412.1 IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase family type 2 subfamily; some organisms carry two different copies of this enzyme; in some organisms, the type 2 subfamily is associated with resistance to the antibiotic pseudomonic acid (mupirocin) YP_001692414.1 Cwp66 homolog YP_001692452.1 catalyzes the isomerization of isopentenyl pyrophosphate to dimethylallyl diphosphate YP_001692457.1 Catalyzes the formation of PRPP from ATP and ribose 5-phosphate YP_001692473.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the B subunit is part of the catalytic core of the ATP synthase complex YP_001692474.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the A subunit is part of the catalytic core of the ATP synthase complex YP_001692486.1 Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates YP_001692509.1 HSP70-class ATPase domain YP_001692517.1 trigger factor YP_001692524.1 isomerizing YP_001692529.1 catalyzes the removal of amino acids from the N termini of peptides YP_001692534.1 histidine-containing protein YP_001692543.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_001692544.1 B2 or R2 protein; type 1b enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdE YP_001692545.1 3-dehydroquinase Type II YP_001692548.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis YP_001692583.1 Fe-S oxidoreductase YP_001692598.1 catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group YP_001692624.1 catalyzes the rate limiting step in dNTP synthesis YP_001692666.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide YP_001692668.1 involved in de novo purine biosynthesis YP_001692671.1 catalyzes the formation of (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4- carboxamido)succinate from 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate and L-aspartate in purine biosynthesis; SAICAR synthase YP_001692683.1 recombinase, phage-related YP_001692727.1 Rlx-like protein YP_001692736.1 required for the synthesis of the hydromethylpyrimidine moiety of thiamine YP_001692756.1 S1 RNA binding domain YP_001692759.1 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr) YP_001692766.1 PMBA ortholog YP_001692767.1 TLDD ortholog YP_001692768.1 with PdxT forms pyridoxal 5'-phosphate from glutamine, either ribose 5-phosphate or ribulose 5-phosphate, and either glyceraldehyde 3-phosphate or dihydroxyacetone phosphate YP_001692781.1 catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_001692784.1 phage-related YP_001692807.1 exonuclease V YP_001692809.1 albumin-binding protein like Cwp66 YP_001692825.1 albumin-binding protein YP_001692831.1 albumin-binding protein YP_001692839.1 ATPase, RNA helicase YP_001692845.1 similar to novel fructose-6-phosphate aldolase from Escherichia coli; enzyme from Methanocaldococcus janaschii shows transaldolase activity YP_001692846.1 membrane component; functions with enzymes IIB (sgaB; ulaB) and IIA (sgaA; ulaC) enzyme I and HPr for anaerobic utilization and uptake of L-ascorbate; sgaTBA are regulated by yifQ as well as Crp and Fnr YP_001692878.1 phage-related YP_001692879.1 putative dCMP deaminase YP_001692880.1 biotin-containing enzyme that catalyzes a two step carboxylation of pyruvate to oxaloacetate YP_001692887.1 multi domain YP_001692889.1 catalyzes the hydrolysis of pyrophosphate to phosphate YP_001692890.1 nicotinamidase YP_001692896.1 putative homolog of CAAX-like membrane endopeptidase YP_001692917.1 GrdX protein YP_001692931.1 GidA; glucose-inhibited cell division protein A; involved in the 5-carboxymethylaminomethyl modification (mnm(5)s(2)U) of the wobble uridine base in some tRNAs YP_001692933.1 SpoIIIJ-associated protein