-- dump date 20140620_033547 -- class Genbank::CDS -- table cds_note -- id note YP_001495450.1 COG1806 Uncharacterized protein conserved in bacteria YP_001495451.1 COG0526 Thiol-disulfide isomerase and thioredoxins YP_001495452.1 COG1134 ABC-type polysaccharide/polyol phosphate transport system, ATPase component YP_001495453.1 COG1682 ABC-type polysaccharide/polyol phosphate export systems, permease component YP_001495454.1 undetermined function YP_001495455.1 COG1974 SOS-response transcriptional repressors (RecA-mediated autopeptidases) YP_001495456.1 COG1835 Predicted acyltransferases YP_001495457.1 COG4804 Uncharacterized conserved protein YP_001495458.1 COG0513 Superfamily II DNA and RNA helicases YP_001495459.1 COG0558 Phosphatidylglycerophosphate synthase YP_001495460.1 functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria YP_001495461.1 COG0668 Small-conductance mechanosensitive channel YP_001495462.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein YP_001495463.1 COG1565 Uncharacterized conserved protein YP_001495464.1 COG3807 Uncharacterized protein conserved in bacteria YP_001495465.1 COG0475 Kef-type K+ transport systems, membrane components YP_001495466.1 COG0799 Uncharacterized homolog of plant Iojap protein YP_001495467.1 COG0271 Stress-induced morphogen (activity unknown) YP_001495469.1 COG0477 Permeases of the major facilitator superfamily YP_001495470.1 COG0697 Permeases of the drug/metabolite transporter (DMT) superfamily YP_001495471.1 COG3047 Outer membrane protein W YP_001495473.1 COG3547 Transposase and inactivated derivatives YP_001495474.1 COG1282 NAD/NADP transhydrogenase beta subunit YP_001495475.1 COG3820 Uncharacterized protein conserved in bacteria YP_001495477.1 COG1678 transcriptional regulator YP_001495478.1 COG0552 Signal recognition particle GTPase YP_001495479.1 COG2956 Predicted N-acetylglucosaminyl transferase YP_001495481.1 COG0801 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase YP_001495482.1 COG0262 Dihydrofolate reductase YP_001495483.1 Required for DNA replication; binds preferentially to single-stranded, linear DNA YP_001495485.1 COG0457 FOG: TPR repeat YP_001495486.1 in Escherichia coli this protein is involved in the biosynthesis of the hypermodified nucleoside 5-methylaminomethyl-2-thiouridine, which is found in the wobble position of some tRNAs and affects ribosomal frameshifting; shows potassium-dependent dimerization and GTP hydrolysis; also involved in regulation of glutamate-dependent acid resistance and activation of gadE YP_001495487.1 COG3547 Transposase and inactivated derivatives YP_001495489.1 COG4226 Uncharacterized protein encoded in hypervariable junctions of pilus gene clusters YP_001495492.1 type II enzyme; in Escherichia coli this enzyme forms a trimer of dimers which is allosterically inhibited by NADH and competitively inhibited by alpha-ketoglutarate; allosteric inhibition is lost when Cys206 is chemically modified which also affects hexamer formation; forms oxaloacetate and acetyl-CoA and water from citrate and coenzyme A; functions in TCA cycle, glyoxylate cycle and respiration; enzyme from Helicobacter pylori is not inhibited by NADH YP_001495493.1 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication YP_001495496.1 COG0795 Predicted permeases YP_001495497.1 COG0671 Membrane-associated phospholipid phosphatase YP_001495498.1 COG1235 Metal-dependent hydrolases of the beta-lactamase superfamily I YP_001495499.1 COG1126 ABC-type polar amino acid transport system, ATPase component YP_001495500.1 COG3577 Predicted aspartyl protease YP_001495501.1 COG5528 Predicted integral membrane protein YP_001495503.1 COG0494 NTP pyrophosphohydrolases including oxidative damage repair enzymes YP_001495504.1 COG1253 Hemolysins and related proteins containing CBS domains YP_001495505.1 COG0319 Predicted metal-dependent hydrolase YP_001495506.1 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_001495507.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate YP_001495508.1 COG0400 Predicted esterase YP_001495509.1 COG0278 Glutaredoxin-related protein YP_001495510.1 COG0177 Predicted EndoIII-related endonuclease YP_001495511.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_001495514.1 catalyzes a two-step reaction, first charging an arginine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class-I aminoacyl-tRNA synthetase YP_001495515.1 dGTPase type 2 subfamily; presumably hydrolyzes dGTP to deoxyguanosine and triphosphate YP_001495516.1 COG2827 Predicted endonuclease containing a URI domain YP_001495517.1 COG0316 Uncharacterized conserved protein YP_001495518.1 COG3203 Outer membrane protein (porin) YP_001495519.1 Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis YP_001495520.1 molecular chaperone that is required for the normal export of envelope proteins out of the cell cytoplasm; in Escherichia coli this proteins forms a homotetramer in the cytoplasm and delivers proteins to be exported to SecA YP_001495521.1 COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_001495522.1 catalyzes the NADPH-dependent reduction of 7-cyano-7-deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) in queuosine biosynthesis YP_001495523.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel. YP_001495524.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B' is part of the membrane proton channel. YP_001495525.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0 YP_001495526.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit A is part of the membrane proton channel F0 YP_001495528.1 COG1651 Protein-disulfide isomerase YP_001495529.1 COG1329 Transcriptional regulators, similar to M. xanthus CarD YP_001495531.1 COG0802 Predicted ATPase or kinase YP_001495532.1 COG0542 ATPases with chaperone activity, ATP-binding subunit YP_001495533.1 EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu YP_001495534.1 one of the last subunits in the assembly of the 30S subunit; absence of S2 does not inhibit assembly but results in an inactive subunit YP_001495535.1 catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA YP_001495537.1 required for 70S ribosome assembly YP_001495538.1 RpmE; RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome YP_001495539.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential YP_001495540.1 COG0548 Acetylglutamate kinase YP_001495541.1 COG3702 Type IV secretory pathway, VirB3 components YP_001495542.1 COG3547 Transposase and inactivated derivatives YP_001495551.1 COG0477 Permeases of the major facilitator superfamily YP_001495553.1 COG1636 Uncharacterized protein conserved in bacteria YP_001495554.1 COG1708 Predicted nucleotidyltransferases YP_001495557.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability YP_001495559.1 COG0286 Type I restriction-modification system methyltransferase subunit YP_001495560.1 COG0286 Type I restriction-modification system methyltransferase subunit YP_001495561.1 COG0568 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) YP_001495562.1 COG0568 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) YP_001495563.1 COG0568 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) YP_001495564.1 synthesizes RNA primers at the replication forks YP_001495565.1 COG0170 Dolichol kinase YP_001495566.1 necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus YP_001495567.1 lipoyl/octanoyltransferase; catalyzes the transfer of the lipoyl/octanoyl moiety of lipoyl/octanoyl-ACP onto lipoate-dependent enzymes like pyruvate dehydrogenase and the glycine cleavage system H protein YP_001495568.1 COG1434 Uncharacterized conserved protein YP_001495569.1 COG0718 Uncharacterized protein conserved in bacteria YP_001495570.1 catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; rhe tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA YP_001495571.1 COG2834 Outer membrane lipoprotein-sorting protein YP_001495572.1 COG3288 NAD/NADP transhydrogenase alpha subunit YP_001495573.1 COG3288 NAD/NADP transhydrogenase alpha subunit YP_001495574.1 COG1887 glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC YP_001495575.1 COG0477 Permeases of the major facilitator superfamily YP_001495576.1 COG3027 Uncharacterized protein conserved in bacteria YP_001495578.1 COG1426 Uncharacterized protein conserved in bacteria YP_001495579.1 COG2902 NAD-specific glutamate dehydrogenase YP_001495583.1 COG0055 F0F1-type ATP synthase, beta subunit YP_001495584.1 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer YP_001495586.1 COG1487 Predicted nucleic acid-binding protein, contains PIN domain YP_001495587.1 glycine--tRNA ligase alpha chain; GlyRS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA YP_001495588.1 glycine--tRNA ligase beta chain; glyS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking the carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA YP_001495589.1 COG0009 translation factor (SUA5) YP_001495591.1 COG2264 Ribosomal protein L11 methylase YP_001495592.1 COG3202 ATP/ADP translocase YP_001495593.1 COG2271 Sugar phosphate permease YP_001495594.1 catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate YP_001495595.1 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_001495596.1 glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA YP_001495597.1 COG1192 ATPases involved in chromosome partitioning YP_001495598.1 COG1475 Predicted transcriptional regulators YP_001495599.1 ChvD; in Agrobacterium tumefaciens, mutations in both Walker boxes were found to affect virulence YP_001495600.1 COG0593 ATPase involved in DNA replication initiation YP_001495602.1 catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis YP_001495603.1 COG0073 EMAP domain YP_001495606.1 COG1127 ABC-type transport system involved in resistance to organic solvents, ATPase component YP_001495607.1 COG0767 ABC-type transport system involved in resistance to organic solvents, permease component YP_001495608.1 converts L-alanine to D-alanine which is used in cell wall biosynthesis; binds one pyridoxal phosphate per monomer; forms a homodimer YP_001495609.1 COG0462 Phosphoribosylpyrophosphate synthetase YP_001495610.1 COG0228 Ribosomal protein S16 YP_001495611.1 catalyzes the transfer of 2-keto-3-deoxy-D-manno-octulosonic acid to lipid A YP_001495612.1 COG2121 Uncharacterized protein conserved in bacteria YP_001495613.1 catalyzes the formation of oxalozcetate and L-glutamate from L-aspartate and 2-oxoglutarate YP_001495614.1 COG2161 Antitoxin of toxin-antitoxin stability system YP_001495615.1 COG0457 FOG: TPR repeat YP_001495616.1 COG2853 Surface lipoprotein YP_001495617.1 COG2854 ABC-type transport system involved in resistance to organic solvents, auxiliary component YP_001495618.1 COG3547 Transposase and inactivated derivatives YP_001495619.1 COG3547 Transposase and inactivated derivatives YP_001495620.1 fusion of hemK/trmB; N-terminal HemK domain transfers a methyl group from S-adenosylmethionine to amide nitrogen of specific glutamine residues in protein chain release factors PrfA and PrfB; C-terminal YP_001495621.1 COG4113 Predicted nucleic acid-binding protein, contains PIN domain YP_001495622.1 COG4118 Antitoxin of toxin-antitoxin stability system YP_001495623.1 COG0564 Pseudouridylate synthases, 23S RNA-specific YP_001495624.1 COG1573 Uracil-DNA glycosylase YP_001495625.1 COG3547 Transposase and inactivated derivatives YP_001495627.1 COG3451 Type IV secretory pathway, VirB4 components YP_001495628.1 COG3704 Type IV secretory pathway, VirB6 components YP_001495629.1 COG3704 Type IV secretory pathway, VirB6 components YP_001495630.1 COG3704 Type IV secretory pathway, VirB6 components YP_001495631.1 COG3704 Type IV secretory pathway, VirB6 components YP_001495632.1 in most organisms, only the N-terminal domain is present in a single polypeptide; in some archaea this domain is fused to a kinase domain; this gene is essential for growth in Escherichia coli and Bacillus subtilis; the secreted glycoprotease from Pasteurella haemolytica showed specificity for O-sialoglycosylated proteins; the Pyrococcus structure shows DNA-binding properties, iron-binding, ATP-binding, and AP endonuclease activity YP_001495633.1 COG2161 Antitoxin of toxin-antitoxin stability system YP_001495634.1 Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr) YP_001495636.1 COG1396 Predicted transcriptional regulators YP_001495637.1 Transfers the fatty acyl group on membrane lipoproteins YP_001495638.1 Catalyzes a key regulatory step in fatty acid biosynthesis YP_001495640.1 COG0595 Predicted hydrolase of the metallo-beta-lactamase superfamily YP_001495641.1 catalyzes the phosphorylation of NAD to NADP YP_001495644.1 COG0457 FOG: TPR repeat YP_001495645.1 involved in a recombinational process of DNA repair, independent of the recBC complex YP_001495646.1 COG1714 Predicted membrane protein/domain YP_001495647.1 COG1238 Predicted membrane protein YP_001495648.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock YP_001495649.1 COG4395 Uncharacterized protein conserved in bacteria YP_001495650.1 COG1506 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases YP_001495651.1 COG3038 Cytochrome B561 YP_001495652.1 COG2002 Regulators of stationary/sporulation gene expression YP_001495653.1 COG5611 Predicted nucleic-acid-binding protein, contains PIN domain YP_001495654.1 catalyzes the interconversion of succinyl-CoA and succinate YP_001495655.1 Catalyzes the only substrate-level phosphorylation in the TCA cycle YP_001495656.1 COG3547 Transposase and inactivated derivatives YP_001495657.1 catalyzes the formation of acetyl phosphate from acetyl-CoA and phosphate; can also act with other short-chain acyl-CoAs YP_001495658.1 COG0282 Acetate kinase YP_001495659.1 COG2002 Regulators of stationary/sporulation gene expression YP_001495660.1 COG4374 Uncharacterized protein conserved in bacteria YP_001495661.1 COG0666 FOG: Ankyrin repeat YP_001495663.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA YP_001495664.1 this protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site YP_001495666.1 COG0666 FOG: Ankyrin repeat YP_001495669.1 COG0768 Cell division protein FtsI/penicillin-binding protein 2 YP_001495671.1 catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate YP_001495673.1 COG3547 Transposase and inactivated derivatives YP_001495674.1 COG1132 ABC-type multidrug transport system, ATPase and permease components YP_001495675.1 COG3637 Opacity protein and related surface antigens YP_001495676.1 COG3637 Opacity protein and related surface antigens YP_001495677.1 COG1146 Ferredoxin YP_001495678.1 COG0755 ABC-type transport system involved in cytochrome c biogenesis, permease component YP_001495679.1 COG3547 Transposase and inactivated derivatives YP_001495680.1 has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair YP_001495681.1 catalyzes the formation of phosphoenolpyruvate from pyruvate YP_001495682.1 COG0625 Glutathione S-transferase YP_001495684.1 COG1268 Uncharacterized conserved protein YP_001495685.1 COG0285 Folylpolyglutamate synthase YP_001495686.1 COG0042 tRNA-dihydrouridine synthase YP_001495690.1 COG0605 Superoxide dismutase YP_001495691.1 COG1752 Predicted esterase of the alpha-beta hydrolase superfamily YP_001495694.1 COG2026 Cytotoxic translational repressor of toxin-antitoxin stability system YP_001495696.1 adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis YP_001495697.1 in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP YP_001495698.1 catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis YP_001495700.1 COG3750 Uncharacterized protein conserved in bacteria YP_001495701.1 forms a complex with SecD and YajC; SecDFyajC stimulates the proton motive force-driven protein translocation; seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF YP_001495702.1 part of NADH-ubiquinone oxidoreductase complex I; shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain; NuoF is part of the soluble NADH dehydrogenase fragment, which represents the electron input part of NADH dehydrogenase YP_001495703.1 COG0681 Signal peptidase I YP_001495704.1 cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity YP_001495705.1 COG0457 FOG: TPR repeat YP_001495706.1 Era; Escherichia coli Ras-like protein; Bex; Bacillus Era-complementing segment; essential protein in Escherichia coli that is involved in many cellular processes; GTPase; binds the cell membrane through apparent C-terminal domain; mutants are arrested during the cell cycle; Streptococcus pneumoniae Era binds to RNA and Escherichia coli Era binds 16S rRNA and 30S ribosome YP_001495707.1 endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity YP_001495708.1 COG0565 rRNA methylase YP_001495710.1 COG1708 Predicted nucleotidyltransferases YP_001495711.1 COG3660 Predicted nucleoside-diphosphate-sugar epimerase YP_001495712.1 COG0489 ATPases involved in chromosome partitioning YP_001495713.1 COG0330 Membrane protease subunits, stomatin/prohibitin homologs YP_001495714.1 COG0330 Membrane protease subunits, stomatin/prohibitin homologs YP_001495715.1 COG0265 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain YP_001495716.1 COG1054 Predicted sulfurtransferase YP_001495717.1 COG2009 Succinate dehydrogenase/fumarate reductase, cytochrome b subunit YP_001495718.1 COG2142 Succinate dehydrogenase, hydrophobic anchor subunit YP_001495719.1 COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain YP_001495720.1 COG3668 Plasmid stabilization system protein YP_001495721.1 part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol YP_001495722.1 COG0765 ABC-type amino acid transport system, permease component YP_001495723.1 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_001495724.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit YP_001495725.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene YP_001495726.1 forms a complex with SecY and SecG; SecYEG forms a protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force YP_001495727.1 Modulates Rho-dependent transcription termination YP_001495728.1 binds directly to 23S ribosomal RNA YP_001495729.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA YP_001495730.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit YP_001495731.1 present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors YP_001495732.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme YP_001495733.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter YP_001495734.1 COG2155 Uncharacterized conserved protein YP_001495735.1 COG0841 Cation/multidrug efflux pump YP_001495736.1 COG0776 Bacterial nucleoid DNA-binding protein YP_001495737.1 catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the delta' subunit seems to interact with the gamma subunit to transfer the beta subunit on the DNA YP_001495738.1 COG0541 Signal recognition particle GTPase YP_001495743.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III YP_001495745.1 COG1633 Uncharacterized conserved protein YP_001495747.1 in Escherichia coli RsmE methylates the N3 position of the U1498 base in 16S rRNA; cells lacking this function can grow, but are outcompeted by wild-type; SAM-dependent m(3)U1498 methyltransferase YP_001495748.1 COG5508 Uncharacterized conserved small protein YP_001495749.1 COG0670 Integral membrane protein, interacts with FtsH YP_001495750.1 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis YP_001495751.1 COG1853 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family YP_001495752.1 COG0834 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain YP_001495753.1 allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA YP_001495754.1 allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA YP_001495755.1 allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA; some Mycoplasma proteins contain an N-terminal fusion to an unknown domain YP_001495756.1 Rrf; Frr; ribosome-recycling factor; release factor 4; RF4; recycles ribosomes upon translation termination along with release factor RF-3 and elongation factor EF-G; A GTPase-dependent process results in release of 50S from 70S; inhibited by release factor RF-1; essential for viability; structurally similar to tRNAs YP_001495757.1 Catalyzes the phosphorylation of UMP to UDP YP_001495758.1 subunit E of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali YP_001495759.1 COG0477 Permeases of the major facilitator superfamily YP_001495761.1 COG0477 Permeases of the major facilitator superfamily YP_001495763.1 COG1396 Predicted transcriptional regulators YP_001495765.1 COG1104 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes YP_001495766.1 COG2867 Oligoketide cyclase/lipid transport protein YP_001495768.1 COG0293 23S rRNA methylase YP_001495769.1 Regulates rRNA biosynthesis by transcriptional antitermination YP_001495770.1 COG0750 Predicted membrane-associated Zn-dependent proteases 1 YP_001495771.1 COG4775 Outer membrane protein/protective antigen OMA87 YP_001495774.1 COG4572 cation transport regulator YP_001495775.1 chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion YP_001495776.1 heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria YP_001495782.1 required for the assembly and function of the DNAX complex which are required for the assembly of the beta subunit onto primed DNA YP_001495783.1 COG2941 Ubiquinone biosynthesis protein COQ7 YP_001495784.1 COG1845 Heme/copper-type cytochrome/quinol oxidase, subunit 3 YP_001495786.1 COG4105 DNA uptake lipoprotein YP_001495787.1 COG0497 ATPase involved in DNA repair YP_001495788.1 COG2317 Zn-dependent carboxypeptidase YP_001495789.1 SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide YP_001495790.1 component of 2-oxoglutarate dehydrogenase complex; catalyzes the transfer of succinyl coenzyme A to form succinyl CoA as part of the conversion of 2-oxoglutarate to succinyl-CoA YP_001495791.1 COG0720 6-pyruvoyl-tetrahydropterin synthase YP_001495792.1 COG1324 Uncharacterized protein involved in tolerance to divalent cations YP_001495793.1 COG1301 Na+/H+-dicarboxylate symporters YP_001495794.1 The UvrABC repair system catalyzes the recognition and processing of DNA lesions. The beta-hairpin of the Uvr-B subunit is inserted between the strands, where it probes for the presence of a lesion YP_001495795.1 COG0695 Glutaredoxin and related proteins YP_001495798.1 COG4953 Membrane carboxypeptidase/penicillin-binding protein PbpC YP_001495799.1 COG1163 Predicted GTPase YP_001495800.1 COG0457 FOG: TPR repeat YP_001495803.1 COG3772 Phage-related lysozyme (muraminidase) YP_001495804.1 COG0500 SAM-dependent methyltransferases YP_001495805.1 COG2337 Growth inhibitor YP_001495806.1 COG0506 Proline dehydrogenase YP_001495808.1 COG3657 Uncharacterized protein conserved in bacteria YP_001495809.1 COG3636 Predicted transcriptional regulator YP_001495811.1 COG1278 Cold shock proteins YP_001495812.1 COG0513 Superfamily II DNA and RNA helicases YP_001495814.1 COG0477 Permeases of the major facilitator superfamily YP_001495816.1 COG0694 Thioredoxin-like proteins and domains YP_001495817.1 COG4574 Serine protease inhibitor ecotin YP_001495818.1 GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function YP_001495820.1 COG3547 Transposase and inactivated derivatives YP_001495822.1 COG4118 Antitoxin of toxin-antitoxin stability system YP_001495823.1 class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle YP_001495825.1 COG0566 rRNA methylases YP_001495826.1 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_001495827.1 NusE; involved in assembly of the 30S subunit; in the ribosome, this protein is involved in the binding of tRNA; in Escherichia coli this protein was also found to be involved in transcription antitermination; NusB/S10 heterodimers bind boxA sequences in the leader RNA of rrn operons which is required for antitermination; binding of NusB/S10 to boxA nucleates assembly of the antitermination complex YP_001495828.1 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_001495829.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA YP_001495830.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel YP_001495831.1 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_001495832.1 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA YP_001495833.1 binds specifically to 23S rRNA during the early stages of 50S assembly; makes contact with all 6 domains of the 23S rRNA in the assembled 50S subunit and ribosome; mutations in this gene result in erythromycin resistance; located near peptidyl-transferase center YP_001495834.1 forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation YP_001495835.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e YP_001495836.1 one of the stabilizing components for the large ribosomal subunit YP_001495837.1 primary binding protein; helps mediate assembly; involved in translation fidelity YP_001495838.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase YP_001495840.1 part of 50S and 5S/L5/L18/L25 subcomplex; contacts 5S rRNA and P site tRNA; forms a bridge to the 30S subunit in the ribosome by binding to S13 YP_001495841.1 located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif YP_001495842.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit YP_001495843.1 ribosomal protein L6 appears to have arisen as a result of an ancient gene duplication as based on structural comparison of the Bacillus stearothermophilus protein; RNA-binding appears to be in the C-terminal domain; mutations in the L6 gene confer resistance to aminoglycoside antibiotics such as gentamicin and these occur in truncations of the C-terminal domain; it has been localized to a region between the base of the L7/L12 stalk and the central protuberance YP_001495844.1 binds 5S rRNA along with protein L5 and L25 YP_001495845.1 COG0098 Ribosomal protein S5 YP_001495846.1 L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7 YP_001495847.1 late assembly protein YP_001495848.1 forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase YP_001495849.1 located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA; makes contact with the large subunit via RNA-protein interactions and via protein-protein interactions with L5; contacts P-site tRNA YP_001495850.1 located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3 YP_001495851.1 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_001495852.1 is a component of the macrolide binding site in the peptidyl transferase center YP_001495853.1 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase YP_001495854.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001495855.1 COG0477 Permeases of the major facilitator superfamily YP_001495856.1 COG4886 Leucine-rich repeat (LRR) protein YP_001495860.1 COG4886 Leucine-rich repeat (LRR) protein YP_001495863.1 COG0598 Mg2+ and Co2+ transporters YP_001495864.1 COG0772 Bacterial cell division membrane protein YP_001495865.1 COG0666 FOG: Ankyrin repeat YP_001495866.1 COG1770 Protease II YP_001495867.1 COG1487 Predicted nucleic acid-binding protein, contains PIN domain YP_001495869.1 COG0248 Exopolyphosphatase YP_001495870.1 COG3505 Type IV secretory pathway, VirD4 components YP_001495871.1 COG0630 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis YP_001495872.1 COG2948 Type IV secretory pathway, VirB10 components YP_001495873.1 COG3504 Type IV secretory pathway, VirB9 components YP_001495874.1 COG3736 Type IV secretory pathway, component VirB8 YP_001495876.1 COG3504 Type IV secretory pathway, VirB9 components YP_001495877.1 subunit C of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali YP_001495879.1 subunit D of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; contains an oxidoreductase domain; catalyzes the transfer of electrons from NADH to ubiquinone YP_001495880.1 COG3547 Transposase and inactivated derivatives YP_001495881.1 COG3547 Transposase and inactivated derivatives YP_001495882.1 subunit D of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; contains an oxidoreductase domain; catalyzes the transfer of electrons from NADH to ubiquinone YP_001495883.1 COG0809 S-adenosylmethionine:tRNA-ribosyltransferase-isomerase (queuine synthetase) YP_001495884.1 COG4465 Pleiotropic transcriptional repressor YP_001495886.1 COG0666 FOG: Ankyrin repeat YP_001495891.1 COG0760 Parvulin-like peptidyl-prolyl isomerase YP_001495892.1 functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; proteins in this cluster correspond SecA1; SecA2 is not essential and seems to play a role in secretion of a subset of proteins YP_001495895.1 COG2071 Predicted glutamine amidotransferases YP_001495896.1 COG0212 5-formyltetrahydrofolate cyclo-ligase YP_001495897.1 COG1714 Predicted membrane protein/domain YP_001495898.1 COG0843 Heme/copper-type cytochrome/quinol oxidases, subunit 1 YP_001495901.1 COG1622 Heme/copper-type cytochrome/quinol oxidases, subunit 2 YP_001495902.1 COG0615 Cytidylyltransferase YP_001495903.1 COG0739 Membrane proteins related to metalloendopeptidases YP_001495904.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis YP_001495906.1 COG0270 Site-specific DNA methylase YP_001495908.1 UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation YP_001495910.1 COG0772 Bacterial cell division membrane protein YP_001495911.1 UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis YP_001495913.1 COG3022 Uncharacterized protein conserved in bacteria YP_001495915.1 COG2984 ABC-type uncharacterized transport system, periplasmic component YP_001495916.1 COG4120 ABC-type uncharacterized transport system, permease component YP_001495917.1 COG1101 ABC-type uncharacterized transport system, ATPase component YP_001495919.1 COG1495 Disulfide bond formation protein DsbB YP_001495920.1 class I; LysRS1; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; in Methanosarcina barkeri this enzyme charges both tRNA molecules for lysine that exist in this organism (but the tRNALysUUU very poorly) and in the presence of LysRS2 can charge tRNAPyl with lysine YP_001495921.1 COG0679 Predicted permeases YP_001495922.1 NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate YP_001495923.1 COG5307 SEC7 domain proteins YP_001495924.1 protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates YP_001495925.1 in Escherichia coli transcription of this gene is enhanced by polyamines YP_001495926.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit YP_001495927.1 COG0291 Ribosomal protein L35 YP_001495928.1 COG0602 Organic radical activating enzymes YP_001495929.1 the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response YP_001495930.1 Enables the recycling of peptidyl-tRNAs produced at termination of translation YP_001495931.1 COG0454 Histone acetyltransferase HPA2 and related acetyltransferases YP_001495932.1 translation-associated GTPase; the crystal structure of the Haemophilus influenzae YchF protein showed similarity to the yeast structure (PDB: 1NI3); fluorescence spectroscopy revealed nucleic acid binding; the yeast protein YBR025c interacts with the translation elongation factor eEF1 YP_001495933.1 COG0477 Permeases of the major facilitator superfamily YP_001495938.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan YP_001495939.1 COG0770 UDP-N-acetylmuramyl pentapeptide synthase YP_001495940.1 involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-aceylmuramoyl-l-alanyl-d-glutamate YP_001495941.1 COG1197 Transcription-repair coupling factor (superfamily II helicase) YP_001495942.1 COG2938 Uncharacterized conserved protein YP_001495943.1 COG0607 Rhodanese-related sulfurtransferase YP_001495944.1 COG0607 Rhodanese-related sulfurtransferase YP_001495945.1 binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself. YP_001495950.1 COG3621 Patatin YP_001495951.1 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_001495952.1 converts protoheme IX and farnesyl diphosphate to heme O YP_001495954.1 COG2982 Uncharacterized protein involved in outer membrane biogenesis YP_001495955.1 COG0071 Molecular chaperone (small heat shock protein) YP_001495958.1 COG3547 Transposase and inactivated derivatives YP_001495960.1 COG0457 FOG: TPR repeat YP_001495961.1 COG3510 Cephalosporin hydroxylase YP_001495966.1 COG2161 Antitoxin of toxin-antitoxin stability system YP_001495967.1 COG0028 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] YP_001495968.1 COG0110 Acetyltransferase (isoleucine patch superfamily) YP_001495969.1 COG3708 Uncharacterized protein conserved in bacteria YP_001495970.1 COG0454 Histone acetyltransferase HPA2 and related acetyltransferases YP_001495971.1 COG1694 Predicted pyrophosphatase YP_001495973.1 COG0666 FOG: Ankyrin repeat YP_001495974.1 COG1051 ADP-ribose pyrophosphatase YP_001495977.1 COG1132 ABC-type multidrug transport system, ATPase and permease components YP_001495979.1 COG2002 Regulators of stationary/sporulation gene expression YP_001495980.1 COG1598 Uncharacterized conserved protein YP_001495981.1 COG0603 Predicted PP-loop superfamily ATPase YP_001495982.1 COG1670 Acetyltransferases, including N-acetylases of ribosomal proteins YP_001495983.1 binds and unfolds substrates as part of the ClpXP protease YP_001495986.1 COG1322 Uncharacterized protein conserved in bacteria YP_001495988.1 COG3306 Glycosyltransferase involved in LPS biosynthesis YP_001495989.1 COG4553 Poly-beta-hydroxyalkanoate depolymerase YP_001495990.1 COG3475 LPS biosynthesis protein YP_001495991.1 valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain YP_001495992.1 COG5464 Uncharacterized conserved protein YP_001495993.1 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids YP_001495994.1 J-type co-chaperone that regulates the ATPase and peptide-binding activity of Hsc66 chaperone; may function in biogenesis of iron-sulfur proteins YP_001495995.1 COG0633 Ferredoxin YP_001495997.1 COG2358 TRAP-type uncharacterized transport system, periplasmic component YP_001495998.1 COG0589 Universal stress protein UspA and related nucleotide-binding proteins YP_001496000.1 COG1271 Cytochrome bd-type quinol oxidase, subunit 1 YP_001496002.1 COG1132 ABC-type multidrug transport system, ATPase and permease components YP_001496003.1 COG0612 Predicted Zn-dependent peptidases YP_001496004.1 COG0463 Glycosyltransferases involved in cell wall biogenesis YP_001496005.1 COG4115 Uncharacterized protein conserved in bacteria YP_001496006.1 COG2161 Antitoxin of toxin-antitoxin stability system YP_001496007.1 involved in the insertion of copper into subunit I of cytochrome C oxidase YP_001496008.1 COG2002 Regulators of stationary/sporulation gene expression YP_001496011.1 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs YP_001496012.1 COG0531 Amino acid transporters YP_001496013.1 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_001496014.1 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_001496015.1 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_001496016.1 COG0593 ATPase involved in DNA replication initiation YP_001496017.1 COG0477 Permeases of the major facilitator superfamily YP_001496018.1 COG0477 Permeases of the major facilitator superfamily YP_001496019.1 MraZ; UPF0040; crystal structure shows similarity to AbrB YP_001496020.1 COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis YP_001496021.1 COG5462 Predicted secreted (periplasmic) protein YP_001496022.1 COG0768 Cell division protein FtsI/penicillin-binding protein 2 YP_001496027.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496028.1 COG0477 Permeases of the major facilitator superfamily YP_001496030.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496031.1 COG0457 FOG: TPR repeat YP_001496032.1 COG0666 FOG: Ankyrin repeat YP_001496035.1 COG1396 Predicted transcriptional regulators YP_001496038.1 COG2975 Uncharacterized protein conserved in bacteria YP_001496039.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+) YP_001496040.1 modifies the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet) which is important in translation initiation; inactivation of this gene in Escherichia coli severely impairs growth YP_001496041.1 COG4820 Ethanolamine utilization protein, possible chaperonin YP_001496042.1 COG1485 Predicted ATPase YP_001496043.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496044.1 COG0477 Permeases of the major facilitator superfamily YP_001496045.1 COG1207 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) YP_001496046.1 COG0217 Uncharacterized conserved protein YP_001496047.1 smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group do not have the motif YP_001496049.1 COG0444 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component YP_001496053.1 COG0741 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) YP_001496058.1 COG0500 SAM-dependent methyltransferases YP_001496059.1 Catalyzes the oxidation of dihydrolipoamide to lipoamide YP_001496060.1 COG0741 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) YP_001496063.1 COG1619 Uncharacterized proteins, homologs of microcin C7 resistance protein MccF YP_001496066.1 COG2887 RecB family exonuclease YP_001496070.1 COG0666 FOG: Ankyrin repeat YP_001496071.1 60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is essential for growth YP_001496072.1 10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring YP_001496073.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496074.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496079.1 recognizes the termination signals UGA and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF2; in some organisms control of PrfB protein levels is maintained through a +1 ribosomal frameshifting mechanism; this protein is similar to release factor 1 YP_001496080.1 binds to the ribosome on the universally-conserved alpha-sarcin loop YP_001496081.1 COG0666 FOG: Ankyrin repeat YP_001496082.1 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 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_001496083.1 COG1738 Uncharacterized conserved protein YP_001496085.1 COG5611 Predicted nucleic-acid-binding protein, contains PIN domain YP_001496086.1 COG0628 Predicted permease YP_001496088.1 with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor YP_001496089.1 RNase PH; tRNA nucleotidyltransferase; forms hexamers in Bacillus subtilis; phosphoroltic 3'-5' exoribonuclease; involved in maturation of tRNA precursors and removes terminal nucleotides near CCA acceptor arms of mature tRNAs YP_001496090.1 COG1189 Predicted rRNA methylase YP_001496091.1 COG1959 Predicted transcriptional regulator YP_001496092.1 COG1017 Hemoglobin-like flavoprotein YP_001496093.1 in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins YP_001496094.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination YP_001496095.1 Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex YP_001496096.1 The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision YP_001496099.1 COG0488 ATPase components of ABC transporters with duplicated ATPase domains YP_001496100.1 COG3328 Transposase and inactivated derivatives YP_001496101.1 COG2521 Predicted archaeal methyltransferase YP_001496103.1 COG0457 FOG: TPR repeat YP_001496104.1 COG3177 Uncharacterized conserved protein YP_001496105.1 COG1522 Transcriptional regulators YP_001496107.1 COG1413 FOG: HEAT repeat YP_001496108.1 COG0457 FOG: TPR repeat YP_001496109.1 COG3328 Transposase and inactivated derivatives YP_001496110.1 COG3328 Transposase and inactivated derivatives YP_001496112.1 COG0655 Multimeric flavodoxin WrbA YP_001496114.1 COG3547 Transposase and inactivated derivatives YP_001496115.1 COG2057 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit YP_001496116.1 COG1788 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit YP_001496119.1 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; XerD specifically exchanges the bottom strands; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs YP_001496122.1 COG2239 Mg/Co/Ni transporter MgtE (contains CBS domain) YP_001496124.1 COG0666 FOG: Ankyrin repeat YP_001496125.1 COG0647 Predicted sugar phosphatases of the HAD superfamily YP_001496126.1 negatively supercoils closed circular double-stranded DNA YP_001496127.1 adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active YP_001496128.1 Promotes RNA polymerase assembly; latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits YP_001496129.1 Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids YP_001496131.1 COG3202 ATP/ADP translocase YP_001496132.1 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_001496133.1 CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS YP_001496136.1 COG0666 FOG: Ankyrin repeat YP_001496138.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate YP_001496139.1 COG0492 Thioredoxin reductase YP_001496140.1 COG3744 Uncharacterized protein conserved in bacteria YP_001496142.1 COG5430 Uncharacterized secreted protein YP_001496143.1 COG3121 P pilus assembly protein, chaperone PapD YP_001496144.1 COG3188 P pilus assembly protein, porin PapC YP_001496145.1 COG5430 Uncharacterized secreted protein YP_001496147.1 hydrolyzes diadenosine polyphosphate YP_001496148.1 involved in swarmer-to-stalked cell differentiation in Caulobacter crescentus; catalyzes the condensation of two GTP molecules to form the secondary messenger cyclic di-GMP (c-di-GMP); upon phosphorylation of domain D1 the protein dimerizes; presumably this allows the two GTP-bound GGDEF (diguanylate cyclase) domains to catalyze the condensation reaction; allosterically inhibited by c-di-GMP YP_001496149.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA YP_001496150.1 COG0483 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase YP_001496152.1 catalyzes the decarboxylaton of phospatidyl-L-sering to phosphatidylethanolamine YP_001496153.1 COG1183 Phosphatidylserine synthase YP_001496154.1 COG1566 Multidrug resistance efflux pump YP_001496156.1 COG0271 Stress-induced morphogen (activity unknown) YP_001496157.1 COG2200 FOG: EAL domain YP_001496158.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis YP_001496159.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis YP_001496160.1 D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli YP_001496161.1 COG1589 Cell division septal protein YP_001496162.1 COG3547 Transposase and inactivated derivatives YP_001496164.1 COG0849 Actin-like ATPase involved in cell division YP_001496165.1 COG1585 Membrane protein implicated in regulation of membrane protease activity YP_001496166.1 COG3474 Cytochrome c2 YP_001496168.1 zinc-dependent; catalyzes the deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis YP_001496169.1 COG1373 Predicted ATPase (AAA+ superfamily) YP_001496170.1 COG0235 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases YP_001496174.1 COG1959 Predicted transcriptional regulator YP_001496175.1 COG1104 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes YP_001496176.1 catalyzes the removal of elemental sulfur from cysteine to produce alanine; involved in NAD biosynthesis YP_001496177.1 COG0822 NifU homolog involved in Fe-S cluster formation YP_001496178.1 COG0316 Uncharacterized conserved protein YP_001496183.1 COG0477 Permeases of the major facilitator superfamily YP_001496184.1 COG3177 Uncharacterized conserved protein YP_001496186.1 plays an essential role in ATP-dependent branch migration of the Holliday junction YP_001496188.1 promotes strand exchange during homologous recombination; RuvAB complex promotes branch migration; RuvABC complex scans the DNA during branch migration and resolves Holliday junctions at consensus sequences; forms hexameric rings around opposite DNA arms; requires ATP for branch migration and orientation of RuvAB complex determines direction of migration YP_001496189.1 COG1132 ABC-type multidrug transport system, ATPase and permease components YP_001496190.1 COG0477 Permeases of the major facilitator superfamily YP_001496191.1 COG1686 D-alanyl-D-alanine carboxypeptidase YP_001496192.1 unwinds double stranded DNA YP_001496193.1 COG4374 Uncharacterized protein conserved in bacteria YP_001496194.1 COG2002 Regulators of stationary/sporulation gene expression YP_001496195.1 COG0163 3-polyprenyl-4-hydroxybenzoate decarboxylase YP_001496196.1 binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity YP_001496200.1 COG0666 FOG: Ankyrin repeat YP_001496201.1 catalyzes the formation of porphobilinogen from 5-aminolevulinate YP_001496203.1 COG4625 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain YP_001496205.1 COG3547 Transposase and inactivated derivatives YP_001496206.1 COG0006 Xaa-Pro aminopeptidase YP_001496208.1 COG1396 Predicted transcriptional regulators YP_001496209.1 COG1295 Predicted membrane protein YP_001496216.1 COG0331 (acyl-carrier-protein) S-malonyltransferase YP_001496217.1 COG0107 Imidazoleglycerol-phosphate synthase YP_001496219.1 COG2929 Uncharacterized protein conserved in bacteria YP_001496221.1 COG0242 N-formylmethionyl-tRNA deformylase YP_001496226.1 COG0457 FOG: TPR repeat YP_001496229.1 COG2071 Predicted glutamine amidotransferases YP_001496233.1 COG1373 Predicted ATPase (AAA+ superfamily) YP_001496234.1 binds the polymerase to DNA and acts as a sliding clamp YP_001496235.1 catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily YP_001496236.1 catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a heterotetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 1 subfamily YP_001496237.1 COG0621 2-methylthioadenine synthetase YP_001496238.1 involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate YP_001496239.1 COG0438 Glycosyltransferase YP_001496240.1 COG1538 Outer membrane protein YP_001496241.1 COG0841 Cation/multidrug efflux pump YP_001496242.1 COG2026 Cytotoxic translational repressor of toxin-antitoxin stability system YP_001496243.1 COG2944 Predicted transcriptional regulator YP_001496244.1 Catalyzes the reversible oxidation of malate to oxaloacetate YP_001496247.1 COG3755 Uncharacterized protein conserved in bacteria YP_001496250.1 COG1218 3'-Phosphoadenosine 5'-phosphosulfate (PAPS) 3'-phosphatase YP_001496251.1 COG0553 Superfamily II DNA/RNA helicases, SNF2 family YP_001496256.1 COG0457 FOG: TPR repeat YP_001496257.1 COG1872 Uncharacterized conserved protein YP_001496258.1 molecular chaperone YP_001496259.1 catalyzes the formation of 5-aminolevulinate from succinyl-CoA and glycine YP_001496261.1 COG2958 Uncharacterized protein conserved in bacteria YP_001496262.1 COG1040 Predicted amidophosphoribosyltransferases YP_001496263.1 COG1040 Predicted amidophosphoribosyltransferases YP_001496266.1 Oxygenase that introduces the hydroxyl group at carbon four of 2-octaprenyl-6-methoxyphenol resulting in the formation of 2-octaprenyl-6-methoxy-1,4-benzoquinone YP_001496267.1 subunit F of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali YP_001496269.1 COG0666 FOG: Ankyrin repeat YP_001496271.1 COG1544 Ribosome-associated protein Y (PSrp-1) YP_001496272.1 COG0663 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily YP_001496273.1 COG0174 Glutamine synthetase YP_001496274.1 COG1496 Uncharacterized conserved protein YP_001496275.1 COG0242 N-formylmethionyl-tRNA deformylase YP_001496277.1 COG0459 Chaperonin GroEL (HSP60 family) YP_001496279.1 COG0210 Superfamily I DNA and RNA helicases YP_001496280.1 COG3547 Transposase and inactivated derivatives YP_001496281.1 COG0463 Glycosyltransferases involved in cell wall biogenesis YP_001496282.1 COG0354 Predicted aminomethyltransferase related to GcvT YP_001496283.1 COG1723 Uncharacterized conserved protein YP_001496284.1 COG0349 Ribonuclease D YP_001496285.1 COG2847 Uncharacterized protein conserved in bacteria YP_001496286.1 COG0350 Methylated DNA-protein cysteine methyltransferase YP_001496290.1 COG0728 Uncharacterized membrane protein, virulence factor YP_001496291.1 catalyzes the hydrolysis of pyrophosphate to phosphate YP_001496292.1 CycJ; periplasmic heme chaperone that binds heme transiently via a histidine residue and delivers it to newly synthesized and exported c-type cytochromes; requires the ATP hydrolysis activity of the CcmA protein in order to transfer the heme to the apocytochrome; part of the cytochrome c maturation system; periplasmic protein anchored to the inner membrane YP_001496294.1 COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems YP_001496295.1 part of the preprotein secretory system; when complexed with proteins SecF and YajC, SecDFyajC stimulates the proton motive force-driven protein translocation, and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane YP_001496296.1 member of preprotein translocase; forms a heterotrimer with SecD and SecF; links the SecD/SecF/YajC/YidC complex with the SecY/SecE/SecG complex YP_001496297.1 COG0438 Glycosyltransferase YP_001496298.1 COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) YP_001496300.1 COG0845 Membrane-fusion protein YP_001496301.1 COG0463 Glycosyltransferases involved in cell wall biogenesis YP_001496302.1 COG0500 SAM-dependent methyltransferases YP_001496303.1 COG0381 UDP-N-acetylglucosamine 2-epimerase YP_001496304.1 COG1086 Predicted nucleoside-diphosphate sugar epimerases YP_001496305.1 COG1091 dTDP-4-dehydrorhamnose reductase YP_001496306.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_001496307.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity YP_001496308.1 COG0758 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake YP_001496310.1 COG0450 Peroxiredoxin YP_001496311.1 COG0330 Membrane protease subunits, stomatin/prohibitin homologs YP_001496312.1 COG0142 Geranylgeranyl pyrophosphate synthase YP_001496315.1 COG4679 Phage-related protein YP_001496316.1 COG3202 ATP/ADP translocase YP_001496317.1 COG1442 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases YP_001496318.1 COG0477 Permeases of the major facilitator superfamily YP_001496319.1 COG1279 Lysine efflux permease YP_001496320.1 COG1279 Lysine efflux permease YP_001496322.1 COG2956 Predicted N-acetylglucosaminyl transferase YP_001496326.1 catalyzes the isomerization of isopentenyl pyrophosphate to dimethylallyl diphosphate YP_001496327.1 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_001496328.1 Catalyzes the rate-limiting step in dNTP synthesis YP_001496330.1 COG0776 Bacterial nucleoid DNA-binding protein YP_001496331.1 COG0616 Periplasmic serine proteases (ClpP class) YP_001496332.1 An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes YP_001496333.1 COG1651 Protein-disulfide isomerase YP_001496334.1 binds to ssrA RNA (tmRNA) and is required for its successful binding to ribosomes; also appears to function in the trans-translation step by promoting accommodation of tmRNA into the ribosomal A site; SmpB protects the tmRNA from RNase R degradation in Caulobacter crescentus; both the tmRNA and SmpB are regulated in cell cycle-dependent manner; functions in release of stalled ribosomes from damaged mRNAs and targeting proteins for degradation YP_001496335.1 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis YP_001496337.1 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids YP_001496338.1 COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_001496339.1 COG0642 Signal transduction histidine kinase YP_001496340.1 COG0020 Undecaprenyl pyrophosphate synthase YP_001496341.1 COG0575 CDP-diglyceride synthetase YP_001496342.1 COG2919 Septum formation initiator YP_001496343.1 COG0349 Ribonuclease D YP_001496346.1 COG0591 Na+/proline symporter YP_001496347.1 COG0591 Na+/proline symporter YP_001496348.1 COG3177 Uncharacterized conserved protein YP_001496349.1 COG3177 Uncharacterized conserved protein YP_001496352.1 COG1215 Glycosyltransferases, probably involved in cell wall biogenesis YP_001496353.1 COG2337 Growth inhibitor YP_001496355.1 COG4695 Phage-related protein YP_001496357.1 COG4986 ABC-type anion transport system, duplicated permease component YP_001496360.1 catalyzes the bidirectional exonucleolytic cleavage of DNA YP_001496361.1 Essential for efficient processing of 16S rRNA YP_001496363.1 COG3202 ATP/ADP translocase YP_001496364.1 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs YP_001496365.1 primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence YP_001496366.1 COG1185 Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) YP_001496367.1 COG0794 Predicted sugar phosphate isomerase involved in capsule formation YP_001496368.1 COG5375 Uncharacterized protein conserved in bacteria YP_001496369.1 COG1934 Uncharacterized protein conserved in bacteria YP_001496370.1 COG1137 ABC-type (unclassified) transport system, ATPase component YP_001496371.1 COG1109 Phosphomannomutase YP_001496372.1 IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity YP_001496374.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496375.1 COG0340 Biotin-(acetyl-CoA carboxylase) ligase YP_001496380.1 COG2945 Predicted hydrolase of the alpha/beta superfamily YP_001496381.1 COG5622 Protein required for attachment to host cells YP_001496383.1 COG0204 1-acyl-sn-glycerol-3-phosphate acyltransferase YP_001496384.1 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_001496386.1 negatively supercoils closed circular double-stranded DNA YP_001496389.1 COG0466 ATP-dependent Lon protease, bacterial type YP_001496390.1 catalyzes the formation of 2-oxobutanoate from L-threonine YP_001496392.1 COG1171 Threonine dehydratase YP_001496395.1 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_001496396.1 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro) YP_001496397.1 COG0477 Permeases of the major facilitator superfamily YP_001496398.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496399.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function YP_001496400.1 COG2194 Predicted membrane-associated, metal-dependent hydrolase YP_001496401.1 defects in the mitochondrial frataxin protein cause Friedreich ataxis which is an autosomal recessive neurodegenerative disease; based on phylogenomic distribution this protein may have a role in iron-sulfur cluster protein assembly YP_001496402.1 COG1559 Predicted periplasmic solute-binding protein YP_001496403.1 COG0165 Argininosuccinate lyase YP_001496404.1 catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate, lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM YP_001496405.1 COG0606 Predicted ATPase with chaperone activity YP_001496406.1 heat shock protein involved in degradation of misfolded proteins YP_001496407.1 heat shock protein involved in degradation of misfolded proteins YP_001496409.1 COG0537 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases YP_001496410.1 catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde YP_001496411.1 COG4618 ABC-type protease/lipase transport system, ATPase and permease components YP_001496412.1 COG0845 Membrane-fusion protein YP_001496413.1 COG4632 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase YP_001496414.1 COG1388 FOG: LysM repeat YP_001496415.1 subunit G of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved specifically with K+ transport YP_001496416.1 subunit B of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali YP_001496419.1 COG0723 Rieske Fe-S protein YP_001496420.1 COG1290 Cytochrome b subunit of the bc complex YP_001496421.1 COG2857 Cytochrome c1 YP_001496424.1 COG3547 Transposase and inactivated derivatives YP_001496425.1 COG3547 Transposase and inactivated derivatives YP_001496427.1 COG1506 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases YP_001496429.1 COG5000 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation YP_001496430.1 COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit YP_001496432.1 COG4799 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) YP_001496437.1 Synthesizes thioester adducts of fatty acids enzymatically to the phosphopantetheine group of acyl carrier protein YP_001496440.1 COG1670 Acetyltransferases, including N-acetylases of ribosomal proteins YP_001496441.1 COG5628 Predicted acetyltransferase YP_001496442.1 COG3177 Uncharacterized conserved protein YP_001496443.1 COG0454 Histone acetyltransferase HPA2 and related acetyltransferases YP_001496444.1 COG5342 Invasion protein B, involved in pathogenesis YP_001496445.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation YP_001496447.1 COG3547 Transposase and inactivated derivatives YP_001496448.1 Involved in ubiquinone biosynthesis YP_001496449.1 COG1108 ABC-type Mn2+/Zn2+ transport systems, permease components YP_001496450.1 a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA YP_001496451.1 COG5590 Uncharacterized conserved protein YP_001496454.1 COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein YP_001496455.1 COG0477 Permeases of the major facilitator superfamily YP_001496456.1 COG4285 Uncharacterized conserved protein YP_001496459.1 COG0500 SAM-dependent methyltransferases YP_001496460.1 COG0492 Thioredoxin reductase YP_001496461.1 COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) YP_001496462.1 COG0679 Predicted permeases YP_001496463.1 COG4670 Acyl CoA:acetate/3-ketoacid CoA transferase YP_001496467.1 COG1961 Site-specific recombinases, DNA invertase Pin homologs YP_001496468.1 COG0582 Integrase YP_001496477.1 COG3451 Type IV secretory pathway, VirB4 components YP_001496481.1 COG0526 Thiol-disulfide isomerase and thioredoxins YP_001496485.1 COG0653 Preprotein translocase subunit SecA (ATPase, RNA helicase) YP_001496486.1 COG0457 FOG: TPR repeat YP_001496487.1 COG3505 Type IV secretory pathway, VirD4 components YP_001496488.1 COG2704 Anaerobic C4-dicarboxylate transporter YP_001496489.1 COG0507 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member YP_001496491.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496493.1 COG2771 DNA-binding HTH domain-containing proteins YP_001496495.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496496.1 COG0642 Signal transduction histidine kinase YP_001496497.1 COG0338 Site-specific DNA methylase YP_001496499.1 Catalyzes the formation of (d)CDP from ATP and (d)CMP YP_001496500.1 in Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins YP_001496501.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates YP_001496503.1 COG3772 Phage-related lysozyme (muraminidase) YP_001496505.1 UbiA prenyltransferase catalyzes the transfer of a prenyl group to various acceptors with hydrophobic ring structures in the biosynthesis of respiratory quinones, hemes, chlorophylls, vitamin E, and shikonin YP_001496507.1 COG0732 Restriction endonuclease S subunits YP_001496509.1 COG5410 Uncharacterized protein conserved in bacteria YP_001496510.1 COG4765 Uncharacterized protein conserved in bacteria YP_001496511.1 COG3307 Lipid A core - O-antigen ligase and related enzymes YP_001496513.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496514.1 The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen YP_001496515.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496517.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496518.1 COG2827 Predicted endonuclease containing a URI domain YP_001496519.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496520.1 COG0759 Uncharacterized conserved protein YP_001496521.1 responsible for recognizing base lesions in the genome and initiating base excision DNA repair YP_001496523.1 This protein performs the mismatch recognition step during the DNA repair process YP_001496524.1 COG0488 ATPase components of ABC transporters with duplicated ATPase domains YP_001496525.1 COG0488 ATPase components of ABC transporters with duplicated ATPase domains YP_001496527.1 COG3468 Type V secretory pathway, adhesin AidA YP_001496528.1 COG1373 Predicted ATPase (AAA+ superfamily) YP_001496529.1 COG3264 Small-conductance mechanosensitive channel YP_001496530.1 COG1132 ABC-type multidrug transport system, ATPase and permease components YP_001496531.1 COG2771 DNA-binding HTH domain-containing proteins YP_001496533.1 COG3570 Streptomycin 6-kinase YP_001496535.1 COG1662 Transposase and inactivated derivatives, IS1 family YP_001496540.1 COG0625 Glutathione S-transferase YP_001496544.1 COG0322 Nuclease subunit of the excinuclease complex YP_001496545.1 COG1463 ABC-type transport system involved in resistance to organic solvents, periplasmic component YP_001496546.1 COG3761 NADH:ubiquinone oxidoreductase 17.2 kD subunit YP_001496547.1 COG3814 Uncharacterized protein conserved in bacteria YP_001496548.1 COG3494 Uncharacterized protein conserved in bacteria YP_001496549.1 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis YP_001496550.1 3'-5' exonuclease of DNA polymerase III YP_001496551.1 COG4278 Uncharacterized conserved protein YP_001496554.1 COG3346 Uncharacterized conserved protein YP_001496555.1 COG1074 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) YP_001496556.1 COG0666 FOG: Ankyrin repeat YP_001496560.1 catalyzes the removal of N-terminal amino acids preferably leucine from various peptides YP_001496561.1 COG1192 ATPases involved in chromosome partitioning YP_001496562.1 catalyzes a two-step reaction, first charging an aspartate molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; contains discriminating and non-discriminating subtypes YP_001496564.1 COG0666 FOG: Ankyrin repeat YP_001496565.1 transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis YP_001496568.1 COG1619 Uncharacterized proteins, homologs of microcin C7 resistance protein MccF YP_001496570.1 COG0591 Na+/proline symporter YP_001496571.1 COG3547 Transposase and inactivated derivatives YP_001496572.1 COG3547 Transposase and inactivated derivatives YP_001496577.1 COG1012 NAD-dependent aldehyde dehydrogenases YP_001496579.1 COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain YP_001496581.1 COG1214 Inactive homolog of metal-dependent proteases, molecular chaperone YP_001496582.1 catalyzes the formation of dUMP from dUTP YP_001496583.1 COG0616 Periplasmic serine proteases (ClpP class) YP_001496584.1 COG0526 Thiol-disulfide isomerase and thioredoxins YP_001496585.1 COG3485 Protocatechuate 3,4-dioxygenase beta subunit YP_001496586.1 COG3547 Transposase and inactivated derivatives YP_001496588.1 COG0545 FKBP-type peptidyl-prolyl cis-trans isomerases 1 YP_001496590.1 COG1622 Heme/copper-type cytochrome/quinol oxidases, subunit 2 YP_001496591.1 COG0672 High-affinity Fe2+/Pb2+ permease YP_001496592.1 Involved in cell division; probably involved in intracellular septation YP_001496593.1 COG2823 Predicted periplasmic or secreted lipoprotein YP_001496594.1 COG0797 Lipoproteins YP_001496595.1 COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases YP_001496596.1 COG0742 N6-adenine-specific methylase YP_001496597.1 COG0666 FOG: Ankyrin repeat YP_001496599.1 COG0666 FOG: Ankyrin repeat YP_001496600.1 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_001496602.1 COG3975 Predicted protease with the C-terminal PDZ domain YP_001496603.1 COG1357 Uncharacterized low-complexity proteins YP_001496604.1 COG2204 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains YP_001496606.1 COG3740 Phage head maturation protease YP_001496611.1 COG5448 Uncharacterized conserved protein YP_001496612.1 COG5449 Uncharacterized conserved protein YP_001496614.1 COG5346 Predicted membrane protein YP_001496615.1 IF-3 has several functions that are required and promote translation initiation including; preventing association of 70S by binding to 30S; monitoring codon-anticodon interactions by promoting disassociation of fMet-tRNA(fMet) from initiation complexes formed on leaderless mRNAs or incorrectly bound noninitiatior tRNAs and complexes with noncanonical start sites; stimulates codon-anticodon interactions at P-site; involved in moving mRNA to the P-site; and in recycling subunits YP_001496616.1 COG0508 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes YP_001496618.1 recognizes the termination signals UAG and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF1; this protein is similar to release factor 2 YP_001496621.1 COG0608 Single-stranded DNA-specific exonuclease YP_001496622.1 COG0500 SAM-dependent methyltransferases YP_001496623.1 COG0457 FOG: TPR repeat YP_001496624.1 involved in DNA repair and RecFOR pathway recombination; RecFOR proteins displace ssDNA-binding protein and facilitate the production of RecA-coated ssDNA YP_001496627.1 catalyzes the formation of 2-oxoglutarate from isocitrate YP_001496628.1 COG2825 Outer membrane protein YP_001496629.1 COG0637 Predicted phosphatase/phosphohexomutase YP_001496630.1 COG1217 Predicted membrane GTPase involved in stress response YP_001496631.1 COG3547 Transposase and inactivated derivatives YP_001496633.1 COG1132 ABC-type multidrug transport system, ATPase and permease components YP_001496634.1 COG1266 Predicted metal-dependent membrane protease YP_001496635.1 catalyzes the interconversion of ribose 5-phosphate to ribulose 5-phosphate; enzyme from E. coli shows allose 6-phosphate isomerase activity YP_001496637.1 COG1451 Predicted metal-dependent hydrolase YP_001496638.1 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_001496640.1 COG3547 Transposase and inactivated derivatives YP_001496642.1 COG5571 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion YP_001496643.1 COG3240 Phospholipase/lecithinase/hemolysin YP_001496644.1 forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA YP_001496646.1 COG0848 Biopolymer transport protein YP_001496647.1 COG0811 Biopolymer transport proteins YP_001496648.1 COG1373 Predicted ATPase (AAA+ superfamily) YP_001496651.1 COG1294 Cytochrome bd-type quinol oxidase, subunit 2 YP_001496652.1 COG0666 FOG: Ankyrin repeat YP_001496653.1 catalyzes the oxidative decarboxylation of pyruvate with concomitant acetylation of a lipoic acid-containing dihydrolipoamide acyltransferase within the complex. The pyruvate dehydrogenase complex catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2); it contains multiple copies of three enzymatic components: pyruvate dehydrogenase (E1), dihydrolipoamide acetyltransferase (E2) and lipoamide dehydrogenase YP_001496654.1 COG1071 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit YP_001496655.1 COG0708 Exonuclease III YP_001496656.1 COG1680 Beta-lactamase class C and other penicillin binding proteins YP_001496657.1 COG0564 Pseudouridylate synthases, 23S RNA-specific YP_001496658.1 COG1612 Uncharacterized protein required for cytochrome oxidase assembly YP_001496659.1 COG3545 Predicted esterase of the alpha/beta hydrolase fold YP_001496660.1 COG3547 Transposase and inactivated derivatives YP_001496662.1 COG1708 Predicted nucleotidyltransferases YP_001496664.1 COG1530 Ribonucleases G and E YP_001496666.1 COG0477 Permeases of the major facilitator superfamily YP_001496668.1 COG0666 FOG: Ankyrin repeat YP_001496670.1 COG0666 FOG: Ankyrin repeat YP_001496671.1 COG0113 Delta-aminolevulinic acid dehydratase YP_001496673.1 forms a direct contact with the tRNA during translation YP_001496674.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit YP_001496675.1 COG1520 FOG: WD40-like repeat YP_001496677.1 COG1729 Uncharacterized protein conserved in bacteria YP_001496678.1 COG0642 Signal transduction histidine kinase YP_001496679.1 COG0793 Periplasmic protease YP_001496680.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling YP_001496681.1 COG0666 FOG: Ankyrin repeat YP_001496682.1 COG3547 Transposase and inactivated derivatives YP_001496684.1 COG3827 Uncharacterized protein conserved in bacteria YP_001496685.1 COG1538 Outer membrane protein YP_001496687.1 COG0085 DNA-directed RNA polymerase, beta subunit/140 kD subunit YP_001496688.1 catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP) YP_001496689.1 methionine--tRNA ligase; MetRS; adds methionine to tRNA(Met) with cleavage of ATP to AMP and diphosphate; some MetRS enzymes form dimers depending on a C-terminal domain that is also found in other proteins such as Trbp111 in Aquifex aeolicus and the cold-shock protein CsaA from Bacillus subtilis while others do not; four subfamilies exist based on sequence motifs and zinc content YP_001496690.1 COG0084 Mg-dependent DNase YP_001496691.1 COG2958 Uncharacterized protein conserved in bacteria YP_001496696.1 COG0836 Mannose-1-phosphate guanylyltransferase YP_001496697.1 Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases YP_001496699.1 Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone YP_001496700.1 COG0661 Predicted unusual protein kinase YP_001496701.1 COG1373 Predicted ATPase (AAA+ superfamily) YP_001496703.1 COG5499 Predicted transcription regulator containing HTH domain YP_001496704.1 EngA; essential Neisserial GTPase; synchronizes cellular events by interacting with multiple targets with tandem G-domains; overexpression in Escherichia coli suppresses rrmJ mutation; structural analysis of the Thermotoga maritima ortholog shows different nucleotide binding affinities in the two binding domains YP_001496705.1 COG4095 Uncharacterized conserved protein YP_001496707.1 COG3547 Transposase and inactivated derivatives YP_001496708.1 COG0760 Parvulin-like peptidyl-prolyl isomerase YP_001496709.1 COG1452 Organic solvent tolerance protein OstA YP_001496710.1 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides YP_001496711.1 COG0834 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain YP_001496712.1 COG2860 Predicted membrane protein YP_001496713.1 COG0708 Exonuclease III YP_001496714.1 catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin YP_001496715.1 COG3547 Transposase and inactivated derivatives YP_001496719.1 COG0477 Permeases of the major facilitator superfamily YP_001496720.1 COG1136 ABC-type antimicrobial peptide transport system, ATPase component YP_001496725.1 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_001496726.1 COG3943 Virulence protein YP_001496729.1 COG0500 SAM-dependent methyltransferases YP_001496730.1 COG0739 Membrane proteins related to metalloendopeptidases YP_001496731.1 Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA YP_001496732.1 transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate YP_001496733.1 COG4625 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain YP_001496734.1 COG0317 Guanosine polyphosphate pyrophosphohydrolases/synthetases YP_001496735.1 COG1472 Beta-glucosidase-related glycosidases YP_001496736.1 COG0776 Bacterial nucleoid DNA-binding protein YP_001496738.1 COG1225 Peroxiredoxin YP_001496739.1 COG1734 DnaK suppressor protein YP_001496740.1 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_001496742.1 COG1502 Phosphatidylserine/phosphatidylglycerophosphate/cardiolipi n synthases and related enzymes YP_001496743.1 COG3243 Poly(3-hydroxyalkanoate) synthetase YP_001496744.1 COG3243 Poly(3-hydroxyalkanoate) synthetase YP_001496745.1 COG0043 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases YP_001496746.1 COG0043 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases YP_001496747.1 COG0760 Parvulin-like peptidyl-prolyl isomerase YP_001496753.1 COG0658 Predicted membrane metal-binding protein YP_001496754.1 COG0617 tRNA nucleotidyltransferase/poly(A) polymerase YP_001496755.1 COG0803 ABC-type metal ion transport system, periplasmic component/surface adhesin YP_001496756.1 COG1373 Predicted ATPase (AAA+ superfamily) YP_001496757.1 The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate YP_001496758.1 binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA YP_001496761.1 COG0472 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N-acetylglucosamine-1-phosphate transferase YP_001496762.1 COG2003 DNA repair proteins YP_001496763.1 catalyzes the removal of N-terminal amino acids from peptides and arylamides; generally Co(II) however activity has been shown for some methionine aminopeptidases with Zn, Fe, or Mn YP_001496764.1 COG3547 Transposase and inactivated derivatives YP_001496766.1 COG1674 DNA segregation ATPase FtsK/SpoIIIE and related proteins YP_001496767.1 COG1368 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily YP_001496768.1 COG2076 Membrane transporters of cations and cationic drugs YP_001496769.1 COG0666 FOG: Ankyrin repeat YP_001496771.1 COG0666 FOG: Ankyrin repeat YP_001496775.1 stimulates the activities of the other two initiation factors, IF-2 and IF-3 YP_001496776.1 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell YP_001496778.1 COG3202 ATP/ADP translocase YP_001496779.1 COG3243 Poly(3-hydroxyalkanoate) synthetase YP_001496780.1 Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation YP_001496783.1 COG4374 Uncharacterized protein conserved in bacteria YP_001496785.1 COG1112 Superfamily I DNA and RNA helicases and helicase subunits YP_001496786.1 Essential for recycling GMP and indirectly, cGMP YP_001496787.1 COG1396 Predicted transcriptional regulators YP_001496788.1 in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall YP_001496790.1 functions in MreBCD complex in some organisms YP_001496791.1 COG0795 Predicted permeases YP_001496792.1 COG2885 Outer membrane protein and related peptidoglycan-associated (lipo)proteins YP_001496793.1 FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs YP_001496794.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not YP_001496795.1 COG2913 Small protein A (tmRNA-binding) YP_001496796.1 COG0457 FOG: TPR repeat YP_001496798.1 COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain YP_001496799.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21 YP_001496800.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit YP_001496801.1 in Escherichia coli this protein is wrapped around the base of the L1 stalk YP_001496803.1 COG4804 Uncharacterized conserved protein YP_001496804.1 catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs YP_001496805.1 Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis YP_001496806.1 carries the fatty acid chain in fatty acid biosynthesis YP_001496807.1 FabF; beta-ketoacyl-ACP synthase II, KASII; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP YP_001496808.1 COG0488 ATPase components of ABC transporters with duplicated ATPase domains YP_001496811.1 catalyzes the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine from N6-(dimethylallyl)adenosine (i(6)A) YP_001496813.1 COG5009 Membrane carboxypeptidase/penicillin-binding protein YP_001496814.1 COG2602 Beta-lactamase class D YP_001496815.1 COG0415 Deoxyribodipyrimidine photolyase YP_001496816.1 COG1373 Predicted ATPase (AAA+ superfamily) YP_001496818.1 COG0286 Type I restriction-modification system methyltransferase subunit YP_001496819.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496820.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496821.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496822.1 COG3671 Predicted membrane protein YP_001496824.1 Catalyzes the conversion of citrate to isocitrate YP_001496826.1 part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane YP_001496827.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit YP_001496828.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit YP_001496829.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit YP_001496830.1 Produces ATP from ADP in the presence of a proton gradient across the membrane; the delta subunit is part of the catalytic core of the ATP synthase complex YP_001496831.1 Catalyzes the oxidation of dihydrolipoamide to lipoamide YP_001496832.1 COG0783 DNA-binding ferritin-like protein (oxidative damage protectant) YP_001496833.1 ATP-binding protein; required for proper cytochrome c maturation YP_001496836.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496837.1 Catalyzes the transfer of electrons from NADH to ubiquinone YP_001496838.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496839.1 Catalyzes the transfer of electrons from NADH to quinone YP_001496840.1 COG0500 SAM-dependent methyltransferases YP_001496841.1 COG3637 Opacity protein and related surface antigens YP_001496842.1 COG0861 Membrane protein TerC, possibly involved in tellurium resistance YP_001496844.1 COG3451 Type IV secretory pathway, VirB4 components YP_001496845.1 catalyzes a two-step reaction, first charging a serine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA YP_001496846.1 COG0805 Sec-independent protein secretion pathway component TatC YP_001496847.1 COG0477 Permeases of the major facilitator superfamily YP_001496849.1 COG1004 Predicted UDP-glucose 6-dehydrogenase YP_001496850.1 catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase YP_001496856.1 catalyzes the conversion of 3-hydroxyacyl-CoA to 3-oxyacyl-CoA YP_001496858.1 COG0034 Glutamine phosphoribosylpyrophosphate amidotransferase YP_001496859.1 COG0542 ATPases with chaperone activity, ATP-binding subunit YP_001496861.1 COG2337 Growth inhibitor YP_001496862.1 COG2026 Cytotoxic translational repressor of toxin-antitoxin stability system YP_001496863.1 COG1396 Predicted transcriptional regulators YP_001496864.1 COG0500 SAM-dependent methyltransferases YP_001496866.1 binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity YP_001496867.1 in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif YP_001496868.1 catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis YP_001496869.1 COG0477 Permeases of the major facilitator superfamily YP_001496874.1 COG1028 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) YP_001496875.1 COG4391 Uncharacterized protein conserved in bacteria YP_001496876.1 This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex YP_001496880.1 part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase YP_001496883.1 COG0270 Site-specific DNA methylase YP_001496884.1 COG0270 Site-specific DNA methylase YP_001496885.1 COG0465 ATP-dependent Zn proteases YP_001496886.1 COG0037 Predicted ATPase of the PP-loop superfamily implicated in cell cycle control YP_001496887.1 COG2026 Cytotoxic translational repressor of toxin-antitoxin stability system YP_001496888.1 COG3210 Large exoproteins involved in heme utilization or adhesion YP_001496891.1 COG3210 Large exoproteins involved in heme utilization or adhesion YP_001496893.1 COG3210 Large exoproteins involved in heme utilization or adhesion YP_001496895.1 COG2220 Predicted Zn-dependent hydrolases of the beta-lactamase fold YP_001496897.1 COG2220 Predicted Zn-dependent hydrolases of the beta-lactamase fold YP_001496899.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation. YP_001496900.1 involved in the peptidyltransferase reaction during translation YP_001496901.1 COG0261 Ribosomal protein L21 YP_001496902.1 COG2154 Pterin-4a-carbinolamine dehydratase YP_001496903.1 phenylalanine 4-hydroxylase; phenylalanine 4-hydroxylase; catalyzes the formation of 4a-hydroxytetrahydrobiopterin and tyrosine from phenylalanine and tetrahydrobiopterin YP_001496904.1 COG1267 Phosphatidylglycerophosphatase A and related proteins YP_001496905.1 TatA; similar to TatE that is found in some proteobacteria; part of system that translocates proteins with a conserved twin arginine motif across the inner membrane; capable of translocating folded substrates typically those with bound cofactors; similar to a protein import system in thylakoid membranes YP_001496906.1 COG0666 FOG: Ankyrin repeat YP_001496907.1 COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component YP_001496908.1 COG0313 Predicted methyltransferases YP_001496911.1 COG5510 Predicted small secreted protein YP_001496912.1 COG3004 Na+/H+ antiporter YP_001496913.1 COG4096 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases YP_001496915.1 dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica. YP_001496916.1 binds to single-strand binding (SSB) protein and acts as a bridge between the DnaX clamp loader complex and the SSB YP_001496918.1 COG1121 ABC-type Mn/Zn transport systems, ATPase component YP_001496919.1 COG1881 Phospholipid-binding protein YP_001496920.1 COG4520 Surface antigen YP_001496921.1 COG0053 Predicted Co/Zn/Cd cation transporters YP_001496922.1 COG0590 Cytosine/adenosine deaminases YP_001496923.1 COG1981 Predicted membrane protein YP_001496924.1 protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic YP_001496925.1 catalyzes the formation of coproporphyrinogen from uroporphyrinogen III