locus-tag class description COG0593 it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids COG0592 DNA-directed DNA polymerase activity COG0115 Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family COG1132 (ABC) transporter COG4129 membrane COG0001 glutamate-1-semialdehyde 2,1-aminomutase activity COG0640 Transcriptional regulator COG1225 Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen COG1052 Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family COG1052 Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family COG3870 Protein conserved in bacteria COG3870 Protein conserved in bacteria COG0294 Catalyzes the condensation of para-aminobenzoate (pABA) with 6-hydroxymethyl-7,8-dihydropterin diphosphate (DHPt-PP) to form 7,8-dihydropteroate (H2Pte), the immediate precursor of folate derivatives COG0735 belongs to the Fur family COG1539 Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin COG0801 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase COG1396 sequence-specific DNA binding COG4824 toxin secretion phage lysis holin COG0860 N-Acetylmuramoyl-L-alanine amidase COG0860 N-Acetylmuramoyl-L-alanine amidase COG0860 N-Acetylmuramoyl-L-alanine amidase COG0553 Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair COG0553 Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair COG0042 Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines COG1511 domain protein COG4499 WXG100 protein secretion system (Wss), protein YukC COG1674 ftsk spoiiie COG1190 Belongs to the class-II aminoacyl-tRNA synthetase family COG1443 Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP) COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component COG2207 Transcriptional regulator COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component COG0160 Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family COG3829 transcription factor binding COG0531 amino acid COG1012 belongs to the aldehyde dehydrogenase family COG2738 Putative neutral zinc metallopeptidase COG2738 Putative neutral zinc metallopeptidase COG1469 GTP cyclohydrolase I activity COG1309 transcriptional regulator COG1309 transcriptional regulator COG1309 transcriptional regulator COG1309 transcriptional regulator COG1131 (ABC) transporter COG1012 belongs to the aldehyde dehydrogenase family COG1012 belongs to the aldehyde dehydrogenase family COG0840 transmembrane signaling receptor activity COG0326 Molecular chaperone. Has ATPase activity COG0697 spore germination COG1733 regulation of RNA biosynthetic process COG0655 NAD(P)H dehydrogenase (quinone) activity COG0667 Aldo Keto reductase COG4637 Psort location Cytoplasmic, score COG0737 Belongs to the 5'-nucleotidase family COG0747 negative chemotaxis COG0747 negative chemotaxis COG0783 Belongs to the Dps family COG0350 Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated COG4606 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG4605 iron ion homeostasis COG4604 ABC transporter, ATP-binding protein COG4607 ABC-type enterochelin transport system periplasmic component COG2766 serine protein kinase COG2718 Belongs to the UPF0229 family COG1633 Catalyzes the formation of the isocyclic ring in chlorophyll biosynthesis. Mediates the cyclase reaction, which results in the formation of divinylprotochlorophyllide (Pchlide) characteristic of all chlorophylls from magnesium-protoporphyrin IX 13-monomethyl ester (MgPMME) COG0161 adenosylmethionine-8-amino-7-oxononanoate transaminase activity COG1120 ATPase activity COG1489 DNA binding COG2311 Membrane COG2311 Membrane COG2311 Membrane COG2311 Membrane COG2311 Membrane COG4585 Histidine kinase COG4585 Histidine kinase COG4585 Histidine kinase COG2197 response regulator COG2197 response regulator COG1131 (ABC) transporter COG1131 (ABC) transporter COG1959 2 iron, 2 sulfur cluster binding COG1017 nitric oxide dioxygenase activity COG1018 Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress COG0624 Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls COG0436 Aminotransferase COG1312 Catalyzes the dehydration of D-mannonate COG4209 transmembrane transport COG4209 transmembrane transport COG4209 transmembrane transport COG4209 transmembrane transport COG4209 transmembrane transport COG0395 ABC-type sugar transport system, permease component COG0395 ABC-type sugar transport system, permease component COG0395 ABC-type sugar transport system, permease component COG0395 ABC-type sugar transport system, permease component COG1028 Short-chain dehydrogenase reductase Sdr COG3546 catalase activity COG3546 catalase activity COG0473 3-isopropylmalate dehydrogenase activity COG0179 Fumarylacetoacetate (FAA) hydrolase COG2508 Transcriptional regulator COG4465 DNA-binding protein that represses the expression of many genes that are induced as cells make the transition from rapid exponential growth to stationary phase. It is a GTP-binding protein that senses the intracellular GTP concentration as an indicator of nutritional limitations. At low GTP concentration it no longer binds GTP and stop to act as a transcriptional repressor COG0454 -acetyltransferase COG3842 ATPase activity COG0395 ABC-type sugar transport system, permease component COG0395 ABC-type sugar transport system, permease component COG0395 ABC-type sugar transport system, permease component COG0584 glycerophosphoryl diester phosphodiesterase COG1120 ATPase activity COG1120 ATPase activity COG0609 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG0609 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG0058 SHG alpha-glucan phosphorylase activity COG0297 glycogen (starch) synthase activity COG0448 Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans COG0448 Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans COG0388 Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source COG3153 acetyltransferase COG1954 Regulates expression of the glpD operon. In the presence of glycerol 3-phosphate (G3P) causes antitermination of transcription of glpD at the inverted repeat of the leader region to enhance its transcription. Binds and stabilizes glpD leader mRNA COG0580 Belongs to the MIP aquaporin (TC 1.A.8) family COG0554 Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate COG0578 Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family COG1586 Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine COG0697 spore germination COG1109 Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate COG0153 Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P) COG1087 Belongs to the NAD(P)-dependent epimerase dehydratase family COG4468 UDPglucose--hexose-1-phosphate uridylyltransferase COG0393 Putative heavy-metal-binding COG2719 SpoVR family COG2719 SpoVR family COG3401 FG-GAP repeat protein COG3401 FG-GAP repeat protein COG2755 lipolytic protein G-D-S-L family COG1653 transport COG1175 transmembrane transport COG0395 ABC-type sugar transport system, permease component COG0395 ABC-type sugar transport system, permease component COG4225 unsaturated rhamnogalacturonyl hydrolase activity COG5578 integral membrane protein COG5578 integral membrane protein COG5578 integral membrane protein COG5578 integral membrane protein COG5578 integral membrane protein COG5578 integral membrane protein COG5578 integral membrane protein COG2972 Histidine kinase COG2972 Histidine kinase COG2972 Histidine kinase COG2972 Histidine kinase COG2972 Histidine kinase COG2972 Histidine kinase COG2972 Histidine kinase COG2207 Transcriptional regulator COG4753 response regulator COG2207 Transcriptional regulator COG4753 response regulator COG2207 Transcriptional regulator COG4753 response regulator COG2207 Transcriptional regulator COG4753 response regulator COG2207 Transcriptional regulator COG4753 response regulator COG2207 Transcriptional regulator COG4753 response regulator COG2207 Transcriptional regulator COG4753 response regulator COG1132 (ABC) transporter COG1132 (ABC) transporter COG1167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs COG0733 neurotransmitter:sodium symporter activity COG0733 neurotransmitter:sodium symporter activity COG1820 Belongs to the metallo-dependent hydrolases superfamily. NagA family COG1960 acyl-CoA dehydrogenase activity COG0318 PFAM AMP-dependent synthetase and ligase COG0318 PFAM AMP-dependent synthetase and ligase COG0439 Biotin carboxylase COG0511 ligase activity, forming carbon-carbon bonds COG0119 Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate) COG1024 Enoyl-CoA hydratase COG1024 Enoyl-CoA hydratase COG4799 Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta COG0365 Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA COG3842 ATPase activity COG2508 Transcriptional regulator COG0189 ligase activity COG4399 Belongs to the UPF0754 family COG3679 Belongs to the UPF0342 family COG0534 Mate efflux family protein COG0561 phosphatase activity COG0635 Involved in the biosynthesis of porphyrin-containing compound COG5002 protein histidine kinase activity COG5002 protein histidine kinase activity COG5002 protein histidine kinase activity COG1132 (ABC) transporter COG1132 (ABC) transporter COG0127 Pyrophosphatase that catalyzes the hydrolysis of nucleoside triphosphates to their monophosphate derivatives, with a high preference for the non-canonical purine nucleotides XTP (xanthosine triphosphate), dITP (deoxyinosine triphosphate) and ITP. Seems to function as a house-cleaning enzyme that removes non-canonical purine nucleotides from the nucleotide pool, thus preventing their incorporation into DNA RNA and avoiding chromosomal lesions COG3344 reverse transcriptase COG3344 reverse transcriptase COG3344 reverse transcriptase COG3344 reverse transcriptase COG3344 reverse transcriptase COG1131 (ABC) transporter COG1131 (ABC) transporter COG1131 (ABC) transporter COG4152 abc transporter atp-binding protein COG1668 transmembrane transport COG0706 membrane insertase activity COG0745 RESPONSE REGULATOR receiver COG2205 protein histidine kinase activity COG2770 Histidine kinase COG2814 Major facilitator Superfamily COG2814 Major facilitator Superfamily COG2814 Major facilitator Superfamily COG3481 metal-dependent phosphohydrolase, HD sub domain COG0760 Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation COG3880 PFAM UvrB UvrC protein COG1846 Transcriptional regulator COG1932 Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine COG0537 adenosine 5'-monophosphoramidase activity COG3869 Catalyzes the specific phosphorylation of arginine residues in COG1131 (ABC) transporter COG4473 ABC transporter COG0785 Cytochrome C biogenesis protein COG1842 Phage shock protein A COG4758 membrane COG4585 Histidine kinase COG0542 response to heat COG0744 Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors COG0407 Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III COG0276 Catalyzes the ferrous insertion into protoporphyrin IX COG1232 Catalyzes the 6-electron oxidation of protoporphyrinogen-IX to form protoporphyrin-IX COG2070 2-Nitropropane dioxygenase COG0600 ABC-type nitrate sulfonate bicarbonate transport system permease component COG1066 DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function COG3290 protein histidine kinase activity COG0536 An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control COG4492 Belongs to the UPF0735 family COG0077 Prephenate dehydratase COG1827 regulation of RNA biosynthetic process COG1104 cysteine desulfurase activity COG0029 Catalyzes the oxidation of L-aspartate to iminoaspartate COG0157 Belongs to the NadC ModD family COG0379 Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate COG1623 Has also diadenylate cyclase activity, catalyzing the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP). c- di-AMP acts as a signaling molecule that couples DNA integrity with progression of sporulation. The rise in c-di-AMP level generated by DisA while scanning the chromosome, operates as a positive signal that advances sporulation COG0632 four-way junction helicase activity COG2255 four-way junction helicase activity COG0809 Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA) COG0343 queuine tRNA-ribosyltransferase activity COG1862 Preprotein translocase COG4956 integral membrane protein (PIN domain superfamily) COG2323 membrane COG2244 polysaccharide biosynthetic process COG0341 Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA COG0342 Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA COG0341 Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA COG0342 Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA COG0053 Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family COG0053 Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family COG5416 Lipopolysaccharide assembly protein A domain COG0608 single-stranded DNA 5'-3' exodeoxyribonuclease activity COG4199 Single-strand DNA-specific exonuclease, C terminal domain COG1211 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity COG0503 Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis COG0317 In eubacteria ppGpp (guanosine 3'-diphosphate 5-' diphosphate) is a mediator of the stringent response that coordinates a variety of cellular activities in response to changes in nutritional abundance COG1490 D-aminoacyl-tRNA deacylase activity COG1653 transport COG0673 inositol 2-dehydrogenase activity COG1082 Xylose isomerase domain protein TIM barrel COG1609 Transcriptional regulator COG0245 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity COG0124 histidyl-tRNA synthetase COG0173 Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp Asn) COG0460 homoserine dehydrogenase COG0460 homoserine dehydrogenase COG1179 involved in molybdopterin and THIamine biosynthesis family 1 COG2256 atpase related to the helicase subunit of the holliday junction resolvase COG2364 Membrane COG1959 2 iron, 2 sulfur cluster binding COG1104 cysteine desulfurase activity COG0008 Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu) COG0482 sulfurtransferase activity COG0507 A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD COG3881 PFAM PRC-barrel domain COG0628 permease COG0013 Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain COG4472 Bacterial protein of unknown function (DUF965) COG0816 Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA COG3906 Belongs to the UPF0473 family COG1045 serine acetyltransferase COG1559 Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation COG4122 O-methyltransferase activity COG0826 peptidase U32 COG0826 peptidase U32 COG0572 uridine kinase COG0782 Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The 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 COG0775 Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively COG0215 cysteine-tRNA ligase activity COG1115 amino acid carrier protein COG1396 sequence-specific DNA binding COG2323 membrane COG2323 membrane COG0566 Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family COG3397 chitin binding COG0753 catalase activity COG0776 regulation of translation COG1183 phosphatidylcholine synthase activity COG3688 RNA-binding protein containing a PIN domain COG0688 phosphatidylethanolamine metabolic process COG1320 monovalent cation:proton antiporter activity COG2212 antiporter activity COG1863 multisubunit Na H antiporter MnhE subunit COG0651 ATP synthesis coupled electron transport COG1006 Multisubunit Na H antiporter MnhC subunit COG2111 Na H antiporter COG1009 NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit COG2111 Na H antiporter COG2179 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668 COG1161 Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity COG0169 Involved in the biosynthesis of the chorismate, which leads to the biosynthesis of aromatic amino acids. Catalyzes the reversible NADPH linked reduction of 3-dehydroshikimate (DHSA) to yield shikimate (SA) COG1534 Rna-binding protein COG1057 Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD) COG1713 HD superfamily hydrolase involved in NAD metabolism COG0799 negative regulation of ribosome biogenesis COG2996 Protein conserved in bacteria COG2226 methyltransferase COG0267 Belongs to the bacterial ribosomal protein bL33 family COG0345 Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline COG1555 photosystem II stabilization COG1596 polysaccharide export COG2131 deaminase COG0658 competence protein COG2333 competence protein COMEC COG1466 dna polymerase III delta subunit COG0268 Binds directly to 16S ribosomal RNA COG0680 Initiates the rapid degradation of small, acid-soluble proteins during spore germination COG0690 P-P-bond-hydrolysis-driven protein transmembrane transporter activity COG0481 GTPase activity COG0635 Involved in the biosynthesis of porphyrin-containing compound COG1420 regulation of RNA biosynthetic process COG0576 Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ COG0443 Heat shock 70 kDa protein COG0484 heat shock protein binding COG2264 protein methyltransferase activity COG1385 rRNA (uridine-N3-)-methyltransferase activity COG0250 Participates in transcription elongation, termination and antitermination COG0621 Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine COG0274 Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate COG1283 sodium-dependent phosphate transmembrane transporter activity COG0828 Belongs to the bacterial ribosomal protein bS21 family COG1610 YqeY-like protein COG1030 water channel activity COG4864 UPF0365 protein COG0080 Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors COG1702 phosphate starvation-inducible protein PhoH COG1480 7TM receptor with intracellular HD hydrolase COG0319 Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA COG0818 Recycling of diacylglycerol produced during the turnover of membrane phospholipid COG0295 cytidine deaminase activity COG1159 An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism COG1381 Involved in DNA repair and RecF pathway recombination COG0752 glycyl-tRNA synthetase alpha subunit COG0081 regulation of translation COG0751 glycine-tRNA ligase activity COG0517 IMP dehydrogenase activity COG1806 Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the COG1671 Belongs to the UPF0178 family COG0358 DNA primase activity COG0568 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released COG2010 Cytochrome c COG2384 SAM-dependent methyltransferase COG0327 Belongs to the GTP cyclohydrolase I type 2 NIF3 family COG0244 Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors COG0761 Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis COG1329 Transcriptional regulator COG1329 Transcriptional regulator COG0513 Belongs to the DEAD box helicase family COG0648 Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin COG5002 protein histidine kinase activity COG5002 protein histidine kinase activity COG1121 (ABC) transporter COG1108 ABC-type Mn2 Zn2 transport systems permease components COG0222 ribosome binding COG0855 Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP) COG1121 (ABC) transporter COG1108 ABC-type Mn2 Zn2 transport systems permease components COG0735 belongs to the Fur family COG5663 Belongs to the 5'(3')-deoxyribonucleotidase family COG4709 membrane COG0821 Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate COG2814 Major facilitator Superfamily COG4086 secreted protein COG0704 Plays a role in the regulation of phosphate uptake COG2813 Specifically methylates the guanine in position COG0605 Destroys radicals which are normally produced within the cells and which are toxic to biological systems COG0477 Major facilitator Superfamily COG0768 penicillin binding COG0768 penicillin binding COG1208 COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon COG0212 Belongs to the 5-formyltetrahydrofolate cyclo-ligase family COG0476 Involved in molybdopterin and thiamine biosynthesis, family 2 COG0457 Tetratricopeptide repeat COG0705 Rhomboid family COG0697 spore germination COG0697 spore germination COG1940 carbohydrate kinase activity COG1940 carbohydrate kinase activity COG1027 Aspartate ammonia-lyase COG0085 RNA polymerase activity COG0492 ferredoxin-NADP+ reductase activity COG0492 ferredoxin-NADP+ reductase activity COG0352 thiamine-phosphate diphosphorylase activity COG2022 thiamine diphosphate biosynthetic process COG0665 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity COG0665 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity COG0351 phosphomethylpyrimidine kinase COG0086 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates COG0011 TIGRFAM Protein of COG2153 protein acetylation COG1514 Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'- phosphomonoester COG2382 esterase COG1267 Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG) COG1267 Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG) COG1396 sequence-specific DNA binding COG0114 fumarate hydratase activity COG1972 Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family COG1358 cellular component organization or biogenesis COG0229 Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine COG0225 Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine COG0456 acetyltransferase COG0048 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 and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit COG1292 Belongs to the BCCT transporter (TC 2.A.15) family COG1292 Belongs to the BCCT transporter (TC 2.A.15) family COG0730 response to heat COG0730 response to heat COG0834 ABC-type amino acid transport signal transduction systems periplasmic component domain COG0765 amino acid transport COG1126 abc transporter atp-binding protein COG4129 membrane COG1376 ErfK ybiS ycfS ynhG family protein COG0049 tRNA binding COG0346 lactoylglutathione lyase activity COG2195 Cleaves the N-terminal amino acid of tripeptides COG0389 Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII COG2257 FlhB HrpN YscU SpaS Family COG2257 FlhB HrpN YscU SpaS Family COG1516 flagellar protein fliS COG0480 Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome COG1728 Protein conserved in bacteria COG1902 pentaerythritol trinitrate reductase activity COG0517 IMP dehydrogenase activity COG0175 sulfate reduction COG0050 This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis COG2046 Belongs to the sulfate adenylyltransferase family COG0306 phosphate transporter COG0529 Catalyzes the synthesis of activated sulfate COG2861 carbohydrate metabolic process COG0492 ferredoxin-NADP+ reductase activity COG0789 Transcriptional regulator COG0789 Transcriptional regulator COG0007 Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme COG1587 Uroporphyrinogen-III synthase COG0051 transcription antitermination factor activity, RNA binding COG0007 Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme COG1648 precorrin-2 dehydrogenase activity COG0527 aspartate kinase activity COG0345 Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline COG0014 Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate COG0263 Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate COG0300 oxidoreductase activity COG0087 One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit COG0367 asparagine synthase COG1028 Short-chain dehydrogenase reductase Sdr COG1028 Short-chain dehydrogenase reductase Sdr COG1028 Short-chain dehydrogenase reductase Sdr COG0503 Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis COG2190 (PTS) system COG1609 Transcriptional regulator COG0088 Forms part of the polypeptide exit tunnel COG0701 Predicted permease COG0523 cobalamin synthesis protein COG0523 cobalamin synthesis protein COG1968 undecaprenyl-diphosphatase activity COG0526 COG0526, thiol-disulfide isomerase and thioredoxins COG1379 DNA repair COG1300 Membrane COG0089 rRNA binding COG0735 belongs to the Fur family COG4974 Belongs to the 'phage' integrase family COG1015 Phosphotransfer between the C1 and C5 carbon atoms of pentose COG3832 glyoxalase III activity COG1686 Belongs to the peptidase S11 family COG0090 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. It has been suggested to have peptidyltransferase activity COG2172 sigma factor antagonist activity COG1191 sigma factor activity COG0332 Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids COG0332 Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids COG0019 diaminopimelate decarboxylase activity COG0652 PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides COG0745 RESPONSE REGULATOR receiver COG2972 Histidine kinase COG0745 RESPONSE REGULATOR receiver COG2972 Histidine kinase COG0185 Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA COG1028 Short-chain dehydrogenase reductase Sdr COG3347 Dehydrogenase COG1070 Carbohydrate kinase COG4806 L-rhamnose isomerase COG1349 DNA-binding transcription factor activity COG0117 Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate COG1985 Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate COG0307 riboflavin synthase, alpha COG0108 Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate COG0807 Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate COG0054 6,7-dimethyl-8-ribityllumazine synthase activity COG0091 The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome COG1547 Domain of unknown function (DUF309) COG1354 Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpB that pull DNA away from mid-cell into both cell halves COG1386 Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpA that pull DNA away from mid-cell into both cell halves COG0605 Destroys radicals which are normally produced within the cells and which are toxic to biological systems COG2323 membrane COG2323 membrane COG0092 Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation COG2323 membrane COG2323 membrane COG2323 membrane COG2323 membrane COG1686 Belongs to the peptidase S11 family COG1686 Belongs to the peptidase S11 family COG2715 membrane protein required for spore maturation COG0700 Nucleoside recognition COG1187 pseudouridine synthase activity COG0526 COG0526, thiol-disulfide isomerase and thioredoxins COG0526 COG0526, thiol-disulfide isomerase and thioredoxins COG0197 Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs COG1333 cytochrome c biogenesis protein COG0755 Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes COG0745 RESPONSE REGULATOR receiver COG5002 protein histidine kinase activity COG5002 protein histidine kinase activity COG5002 protein histidine kinase activity COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component COG0609 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG1120 ATPase activity COG0255 Belongs to the universal ribosomal protein uL29 family COG1270 Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group COG0079 Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily COG2087 Catalyzes ATP-dependent phosphorylation of adenosylcobinamide and addition of GMP to adenosylcobinamide phosphate COG1492 cobalamin metabolic process COG0368 Joins adenosylcobinamide-GDP and alpha-ribazole to generate adenosylcobalamin (Ado-cobalamin). Also synthesizes adenosylcobalamin 5'-phosphate from adenosylcobinamide-GDP and alpha-ribazole 5'-phosphate COG2096 Adenosyltransferase COG2720 vancomycin resistance protein COG0186 One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA COG0739 heme binding COG0111 D-isomer specific 2-hydroxyacid dehydrogenase COG0221 Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions COG1141 Ferredoxin COG4955 Helix-turn-helix domain COG0514 ATP-dependent DNA helicase (RecQ) COG0093 Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome COG1266 CAAX protease self-immunity COG2105 PFAM AIG2 family protein COG1473 amidohydrolase COG0456 acetyltransferase COG1595 DNA-templated transcription, initiation COG0198 One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit COG1408 metallophosphoesterase COG4862 establishment of competence for transformation COG1181 Belongs to the D-alanine--D-alanine ligase family COG0334 Belongs to the Glu Leu Phe Val dehydrogenases family COG0334 Belongs to the Glu Leu Phe Val dehydrogenases family COG0492 ferredoxin-NADP+ reductase activity COG0252 asparaginase activity COG2339 peptidase activity COG0626 cystathionine gamma-synthase activity COG0094 This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits COG0626 cystathionine gamma-synthase activity COG0646 methionine synthase COG0685 methylenetetrahydrofolate reductase (NAD(P)H) activity COG0646 methionine synthase COG1410 methionine synthase COG3409 Peptidoglycan-binding domain 1 protein COG3773 Cell wall hydrolase COG2959 enzyme of heme biosynthesis COG0283 belongs to the cytidylate kinase family. Type 1 subfamily COG0204 Acyl-transferase COG0539 negative regulation of cytoplasmic translation COG0199 Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site COG1160 GTP binding COG0344 acyl-phosphate glycerol-3-phosphate acyltransferase activity COG0240 glycerol-3-phosphate dehydrogenase [NAD(P)+] activity COG0699 ATPase. Has a role at an early stage in the morphogenesis of the spore coat COG0302 gtp cyclohydrolase COG0096 One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit COG0142 geranyltranstransferase activity COG2226 methyltransferase COG0382 Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate COG0163 prenyltransferase activity COG1427 Catalyzes the dehydration of chorismate into 3- (1- carboxyvinyl)oxy benzoate, a step in the biosynthesis of menaquinone (MK, vitamin K2) COG0105 UTP biosynthetic process COG1352 Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP COG0082 Catalyzes the anti-1,4-elimination of the C-3 phosphate and the C-6 proR hydrogen from 5-enolpyruvylshikimate-3-phosphate (EPSP) to yield chorismate, which is the branch point compound that serves as the starting substrate for the three terminal pathways of aromatic amino acid biosynthesis. This reaction introduces a second double bond into the aromatic ring system COG0337 Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ) COG0097 This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7 L12 stalk, and near the tRNA binding site of the peptidyltransferase center COG4401 Chorismate mutase type I COG0547 Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA) COG0134 indole-3-glycerol-phosphate synthase activity COG0135 phosphoribosylanthranilate isomerase activity COG0133 tryptophan synthase activity COG0159 tryptophan synthase activity COG0079 Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily COG0287 Prephenate dehydrogenase COG0128 3-phosphoshikimate 1-carboxyvinyltransferase activity COG0256 This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance COG0457 Tetratricopeptide repeat COG5582 Belongs to the UPF0302 family COG0723 plastoquinol--plastocyanin reductase activity COG1290 Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis COG2010 Cytochrome c COG4347 Protein of unknown function (DUF1405) COG0098 Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body COG1284 Uncharacterised 5xTM membrane BCR, YitT family COG1284 COG1694 Mazg nucleotide pyrophosphohydrolase COG0289 4-hydroxy-tetrahydrodipicolinate reductase COG1803 Methylglyoxal synthase COG2120 A mycothiol (MSH, N-acetylcysteinyl-glucosaminyl- inositol) S-conjugate amidase, it recycles conjugated MSH to the N-acetyl cysteine conjugate (AcCys S-conjugate, a mercapturic acid) and the MSH precursor. Involved in MSH-dependent detoxification of a number of alkylating agents and antibiotics COG0438 transferase activity, transferring glycosyl groups COG0617 tRNA 3'-terminal CCA addition COG0340 biotin-[acetyl-CoA-carboxylase] ligase activity COG1654 Acts both as a biotin-- acetyl-CoA-carboxylase ligase and a biotin-operon repressor. In the presence of ATP, BirA activates biotin to form the BirA-biotinyl-5'-adenylate (BirA-bio- 5'-AMP or holoBirA) complex. HoloBirA can either transfer the biotinyl moiety to the biotin carboxyl carrier protein (BCCP) subunit of acetyl-CoA carboxylase, or bind to the biotin operator site and inhibit transcription of the operon COG0413 3-methyl-2-oxobutanoate hydroxymethyltransferase activity COG1841 ribosomal large subunit assembly COG0414 Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate COG0853 Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine COG0847 DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease COG1199 ATP-dependent helicase activity COG0847 DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease COG1199 ATP-dependent helicase activity COG0402 S-adenosylhomocysteine deaminase activity COG0017 Asparaginyl-tRNA synthetase COG3935 DnaD domain protein COG0200 Binds to the 23S rRNA COG0177 DNA repair enzyme that has both DNA N-glycosylase activity and AP-lyase activity. The DNA N-glycosylase activity releases various damaged pyrimidines from DNA by cleaving the N- glycosidic bond, leaving an AP (apurinic apyrimidinic) site. The AP-lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate COG0699 ATPase. Has a role at an early stage in the morphogenesis of the spore coat COG0744 Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors COG4499 WXG100 protein secretion system (Wss), protein YukC COG3331 DNA recombination COG0789 Transcriptional regulator COG0201 protein transport COG2860 membrane COG1171 Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA COG0784 Response regulator, receiver COG0835 chemotaxis COG0784 Response regulator, receiver COG0835 chemotaxis COG1234 tRNA 3'-trailer cleavage COG0563 adenylate kinase activity COG1413 lyase activity COG3402 PFAM membrane-flanked domain COG3428 Bacterial PH domain COG0024 Methionine aminopeptidase COG0067 glutamate synthase COG0069 glutamate synthase activity COG0070 glutamate synthase COG0493 'glutamate synthase COG2508 Transcriptional regulator COG2508 Transcriptional regulator COG2508 Transcriptional regulator COG1012 belongs to the aldehyde dehydrogenase family COG0006 proline dipeptidase activity COG0329 Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA) COG0561 phosphatase activity COG0561 phosphatase activity COG0361 One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre- initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initation complex COG0502 Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism COG2978 secondary active p-aminobenzoyl-glutamate transmembrane transporter activity COG2978 secondary active p-aminobenzoyl-glutamate transmembrane transporter activity COG1136 (ABC) transporter COG1136 (ABC) transporter COG1136 (ABC) transporter COG2124 cytochrome p450 COG0257 Belongs to the bacterial ribosomal protein bL36 family COG3048 D-serine ammonia-lyase activity COG1893 Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid COG1111 helicase COG1205 dead DEAH box helicase COG3359 exonuclease COG0099 Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits COG4474 Belongs to the UPF0398 family COG3599 regulation of cell shape COG0328 RNA-DNA hybrid ribonuclease activity COG0116 Belongs to the methyltransferase superfamily COG1115 amino acid carrier protein COG1115 amino acid carrier protein COG1597 lipid kinase activity COG0584 glycerophosphoryl diester phosphodiesterase COG0100 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 COG0346 lactoylglutathione lyase activity COG1834 amidinotransferase COG0073 Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation COG0662 Cupin 2, conserved barrel domain protein COG2207 Transcriptional regulator COG0583 DNA-binding transcription factor activity COG0202 RNA polymerase activity COG1690 Belongs to the RtcB family COG1199 ATP-dependent helicase activity COG1966 Carbon starvation protein COG0003 Pfam Anion-transporting ATPase COG0203 ribosomal protein L17 COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG0444 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG1744 ABC transporter substrate-binding protein PnrA-like COG1744 ABC transporter substrate-binding protein PnrA-like COG3852 Histidine kinase COG3852 Histidine kinase COG3852 Histidine kinase COG2340 Cysteine-rich secretory protein family COG2340 Cysteine-rich secretory protein family COG2227 3-demethylubiquinone-9 3-O-methyltransferase activity COG1198 Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA COG1122 ATPase activity COG1078 dGTPase activity COG2049 5-oxoprolinase (ATP-hydrolyzing) activity COG1122 ATPase activity COG1984 allophanate hydrolase subunit 2 COG1414 Transcriptional regulator COG1914 H( )-stimulated, divalent metal cation uptake system COG1540 5-oxoprolinase (ATP-hydrolyzing) activity COG1071 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor COG1071 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor COG0022 dehydrogenase e1 component COG0022 dehydrogenase e1 component COG0508 dehydrogenase complex catalyzes the overall conversion of COG0508 dehydrogenase complex catalyzes the overall conversion of COG1249 Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family COG3284 Transcriptional regulator COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0619 Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates COG4122 O-methyltransferase activity COG1063 alcohol dehydrogenase COG1620 l-lactate permease COG1620 l-lactate permease COG0247 lactate metabolic process COG1139 Iron-sulfur cluster binding protein COG1556 Lactate utilization protein COG2186 Transcriptional regulator COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG0101 tRNA pseudouridine synthase activity COG0304 beta-ketoacyl-acyl-carrier-protein synthase II activity COG0304 beta-ketoacyl-acyl-carrier-protein synthase II activity COG0508 dehydrogenase complex catalyzes the overall conversion of COG0508 dehydrogenase complex catalyzes the overall conversion of COG0102 This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly COG1024 Enoyl-CoA hydratase COG1024 Enoyl-CoA hydratase COG0764 3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity COG1609 Transcriptional regulator COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG0524 Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway COG0103 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) COG1621 beta-fructofuranosidase activity COG3534 alpha-L-arabinofuranosidase COG0371 Dehydrogenase COG1175 transmembrane transport COG1175 transmembrane transport COG3940 Belongs to the glycosyl hydrolase 43 family COG0834 ABC-type amino acid transport signal transduction systems periplasmic component domain COG0235 Class ii aldolase COG1069 ribulokinase activity COG2160 L-arabinose isomerase activity COG3534 alpha-L-arabinofuranosidase COG1609 Transcriptional regulator COG0765 amino acid transport COG3507 Belongs to the glycosyl hydrolase 43 family COG1457 Belongs to the purine-cytosine permease (2.A.39) family COG2357 RelA SpoT domain protein COG1309 transcriptional regulator COG1126 abc transporter atp-binding protein COG2320 Catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A COG2318 DinB family COG2318 DinB family COG0494 nUDIX hydrolase COG1797 cobyrinic acid a,c-diamide synthase activity COG0488 (ABC) transporter COG0860 N-Acetylmuramoyl-L-alanine amidase COG1501 Belongs to the glycosyl hydrolase 31 family COG1917 Cupin 2, conserved barrel domain protein COG2207 Transcriptional regulator COG1472 Belongs to the glycosyl hydrolase 3 family COG0395 ABC-type sugar transport system, permease component COG2501 S4 domain COG1175 transmembrane transport COG1175 transmembrane transport COG1175 transmembrane transport COG0395 ABC-type sugar transport system, permease component COG1609 Transcriptional regulator COG1404 Belongs to the peptidase S8 family COG0697 spore germination COG0318 PFAM AMP-dependent synthetase and ligase COG0422 Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction COG0697 spore germination COG1457 Belongs to the purine-cytosine permease (2.A.39) family COG0684 Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions COG0506 proline dehydrogenase activity COG1495 Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein COG0745 RESPONSE REGULATOR receiver COG2239 Acts as a magnesium transporter COG2239 Acts as a magnesium transporter COG2239 Acts as a magnesium transporter COG0384 phenazine biosynthesis protein PhzF COG1063 alcohol dehydrogenase COG1063 alcohol dehydrogenase COG0707 Cell wall formation. Catalyzes the transfer of a GlcNAc subunit on undecaprenyl-pyrophosphoryl-MurNAc-pentapeptide (lipid intermediate I) to form undecaprenyl-pyrophosphoryl-MurNAc- (pentapeptide)GlcNAc (lipid intermediate II) COG1131 (ABC) transporter COG4977 sequence-specific DNA binding COG2814 Major facilitator Superfamily COG1182 Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity COG1975 Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family COG1975 Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family COG1529 Aldehyde oxidase and xanthine dehydrogenase COG0693 protein deglycase activity COG0753 catalase activity COG2986 histidine ammonia-lyase COG2987 Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate COG1228 amidohydrolase COG0010 Belongs to the arginase family COG2056 Na+-H+ antiporter family COG0457 Tetratricopeptide repeat COG0457 Tetratricopeptide repeat COG0697 spore germination COG1250 3-hydroxyacyl-CoA dehydrogenase COG1024 Enoyl-CoA hydratase COG1024 Enoyl-CoA hydratase COG0183 Belongs to the thiolase family COG1486 melibiose metabolic process COG1486 melibiose metabolic process COG0654 COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases COG0179 Fumarylacetoacetate (FAA) hydrolase COG3279 Response regulator of the LytR AlgR family COG1609 Transcriptional regulator COG2182 Extracellular solute-binding protein COG1175 transmembrane transport COG1175 transmembrane transport COG3833 ABC-type maltose transport systems, permease component COG3833 ABC-type maltose transport systems, permease component COG1874 Beta-galactosidase COG3867 Arabinogalactan endo-beta-1,4-galactanase COG0488 (ABC) transporter COG0488 (ABC) transporter COG5646 InterPro IPR014922 COG0312 modulator of DNA gyrase COG0312 modulator of DNA gyrase COG1063 alcohol dehydrogenase COG2814 Major facilitator Superfamily COG2814 Major facilitator Superfamily COG0457 Tetratricopeptide repeat COG0431 NADPH-dependent FMN reductase COG2226 methyltransferase COG0586 Pfam SNARE associated Golgi protein COG0500 methyltransferase COG1683 Conserved Protein COG1846 Transcriptional regulator COG1846 Transcriptional regulator COG0477 Major facilitator Superfamily COG3775 system Galactitol-specific IIC component COG0747 negative chemotaxis COG0601 transmembrane transport COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG0444 Belongs to the ABC transporter superfamily COG3414 Phosphotransferase system galactitol-specific IIB component COG1124 (ABC) transporter COG1404 Belongs to the peptidase S8 family COG0640 Transcriptional regulator COG4430 Bacteriocin-protection, YdeI or OmpD-Associated COG2133 pyrroloquinoline quinone binding COG3328 transposase activity COG3328 transposase activity COG3328 transposase activity COG3328 transposase activity COG3328 transposase activity COG3328 transposase activity COG3328 transposase activity COG3328 transposase activity COG3328 transposase activity COG0583 DNA-binding transcription factor activity COG2197 response regulator COG2197 response regulator COG0334 Belongs to the Glu Leu Phe Val dehydrogenases family COG0583 DNA-binding transcription factor activity COG3405 Belongs to the glycosyl hydrolase 8 (cellulase D) family COG3327 negative regulation of DNA-templated transcription, initiation COG5578 integral membrane protein COG2814 Major facilitator Superfamily COG0583 DNA-binding transcription factor activity COG0516 GMP reductase activity COG0517 IMP dehydrogenase activity COG2197 response regulator COG2197 response regulator COG3693 PFAM glycoside hydrolase, family 10 COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG1396 sequence-specific DNA binding COG3396 Phenylacetate-CoA oxygenase COG0681 Belongs to the peptidase S26 family COG2225 Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA COG0277 FAD linked oxidase domain protein COG0247 lactate metabolic process COG0247 lactate metabolic process COG0277 FAD linked oxidase domain protein COG0277 FAD linked oxidase domain protein COG1414 Transcriptional regulator COG1414 Transcriptional regulator COG1988 membrane-bound metal-dependent COG0188 A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner COG0187 DNA topoisomerase II activity COG1832 CoA-binding protein COG1028 Short-chain dehydrogenase reductase Sdr COG1309 transcriptional regulator COG1511 domain protein COG2317 Broad specificity carboxypetidase that releases amino acids sequentially from the C-terminus, including neutral, aromatic, polar and basic residues COG4841 protein insertion into membrane COG4841 protein insertion into membrane COG1011 Hydrolase COG0115 Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family COG1247 -acetyltransferase COG2151 metal-sulfur cluster biosynthetic enzyme COG0656 L-ascorbic acid biosynthetic process COG0656 L-ascorbic acid biosynthetic process COG0346 lactoylglutathione lyase activity COG3069 C4-dicarboxylate transmembrane transporter activity COG1587 Uroporphyrinogen-III synthase COG0673 inositol 2-dehydrogenase activity COG3717 Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate COG1028 Short-chain dehydrogenase reductase Sdr COG1349 DNA-binding transcription factor activity COG1349 DNA-binding transcription factor activity COG1280 lysine exporter protein (LysE YggA) COG1113 amino acid transport COG2151 metal-sulfur cluster biosynthetic enzyme COG0400 carboxylic ester hydrolase activity COG0346 lactoylglutathione lyase activity COG0697 spore germination COG1024 Enoyl-CoA hydratase COG1960 acyl-CoA dehydrogenase activity COG0542 response to heat COG0258 In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity COG1404 Belongs to the peptidase S8 family COG1024 Enoyl-CoA hydratase COG0265 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG0436 Aminotransferase COG1012 belongs to the aldehyde dehydrogenase family COG0180 Tryptophanyl-tRNA synthetase COG0586 Pfam SNARE associated Golgi protein COG0508 dehydrogenase complex catalyzes the overall conversion of COG0567 Dehydrogenase, E1 component COG1250 3-hydroxyacyl-CoA dehydrogenase COG1273 With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD COG1793 dna ligase COG3285 dna ligase COG1028 Short-chain dehydrogenase reductase Sdr COG0809 Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA) COG2203 Gaf domain COG4585 Histidine kinase COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG1609 Transcriptional regulator COG0673 inositol 2-dehydrogenase activity COG0673 inositol 2-dehydrogenase activity COG4146 Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family COG0395 ABC-type sugar transport system, permease component COG1175 transmembrane transport COG1653 transport COG1609 Transcriptional regulator COG1486 melibiose metabolic process COG2207 Transcriptional regulator COG0745 RESPONSE REGULATOR receiver COG0778 Nitroreductase COG1012 belongs to the aldehyde dehydrogenase family COG0394 Belongs to the low molecular weight phosphotyrosine protein phosphatase family COG2312 Erythromycin esterase COG0780 Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) COG0720 synthase COG0603 Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0)) COG2309 aminopeptidase activity COG0659 secondary active sulfate transmembrane transporter activity COG0225 Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine COG3314 Sporulation integral membrane protein YlbJ COG3314 Sporulation integral membrane protein YlbJ COG1509 lysine 2,3-aminomutase activity COG2057 Acyl CoA acetate 3-ketoacid CoA transferase beta subunit COG1788 Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit COG0161 adenosylmethionine-8-amino-7-oxononanoate transaminase activity COG0745 RESPONSE REGULATOR receiver COG1680 COG1680 Beta-lactamase class C and other penicillin binding COG1119 ATPase activity COG2200 EAL domain COG1853 conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family COG2267 carboxylic ester hydrolase activity COG1897 L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine COG0613 PHP domain protein COG0613 PHP domain protein COG0171 NAD+ synthase (glutamine-hydrolyzing) activity COG1522 sequence-specific DNA binding COG1522 sequence-specific DNA binding COG1522 sequence-specific DNA binding COG0824 Thioesterase COG0464 growth COG0464 growth COG1388 LysM domain COG3858 chitin binding COG0398 Pfam SNARE associated Golgi protein COG1048 Catalyzes the isomerization of citrate to isocitrate via cis-aconitate COG1607 acyl-coa hydrolase COG1607 acyl-coa hydrolase COG1210 Utp--glucose-1-phosphate uridylyltransferase COG0451 ADP-glyceromanno-heptose 6-epimerase activity COG0438 transferase activity, transferring glycosyl groups COG2334 A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response COG1288 antiporter activity COG0044 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides COG1082 Xylose isomerase domain protein TIM barrel COG1012 belongs to the aldehyde dehydrogenase family COG1609 Transcriptional regulator COG0191 fructose-bisphosphate aldolase activity COG1082 Xylose isomerase domain protein TIM barrel COG0673 inositol 2-dehydrogenase activity COG1082 Xylose isomerase domain protein TIM barrel COG0214 Catalyzes the formation of pyridoxal 5'-phosphate from ribose 5-phosphate (RBP), glyceraldehyde 3-phosphate (G3P) and ammonia. The ammonia is provided by the PdxT subunit. Can also use ribulose 5-phosphate and dihydroxyacetone phosphate as substrates, resulting from enzyme-catalyzed isomerization of RBP and G3P, respectively COG3962 Belongs to the TPP enzyme family COG0524 Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway COG3718 enzyme involved in inositol metabolism COG1172 Belongs to the binding-protein-dependent transport system permease family COG1172 Belongs to the binding-protein-dependent transport system permease family COG1129 ABC transporter COG0667 Aldo Keto reductase COG0686 Belongs to the AlaDH PNT family COG2226 methyltransferase COG4846 Membrane protein involved in cytochrome C biogenesis COG1132 (ABC) transporter COG1132 (ABC) transporter COG2801 Transposase and inactivated derivatives COG2801 Transposase and inactivated derivatives COG2801 Transposase and inactivated derivatives COG2801 Transposase and inactivated derivatives COG2801 Transposase and inactivated derivatives COG4974 Belongs to the 'phage' integrase family COG3763 UPF0154 protein COG0021 Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate COG4224 UPF0291 protein COG1961 COG1961 Site-specific recombinases, DNA invertase Pin homologs COG1974 Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair COG0174 glutamine synthetase COG4100 CystaTHIonine beta-lyase family protein involved in aluminum resistance COG2262 GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis COG1923 regulation of RNA biosynthetic process COG0324 Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A) COG2136 Putative SAM-dependent methyltransferase COG2521 methyltransferase COG1762 phosphoenolpyruvate-dependent sugar phosphotransferase system COG0323 This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a molecular matchmaker , a protein that 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 COG0249 that it carries out the mismatch recognition step. This protein has a weak ATPase activity COG4550 Control of competence regulator ComK, YlbF/YmcA COG0621 Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine COG1013 pyruvate-flavodoxin oxidoreductase activity COG2359 stage V sporulation protein S COG1692 metallophosphoesterase COG1418 mRNA catabolic process COG1195 it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP COG0468 Can catalyze 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. It interacts with LexA causing its activation and leading to its autocatalytic cleavage COG0513 Belongs to the DEAD box helicase family COG1058 Belongs to the CinA family COG1546 Belongs to the CinA family COG0558 Belongs to the CDP-alcohol phosphatidyltransferase class-I family COG1666 GTP binding COG1426 Protein conserved in bacteria COG0300 oxidoreductase activity COG0612 Peptidase, M16 COG0612 Peptidase, M16 COG2188 Transcriptional regulator COG1674 ftsk spoiiie COG0740 serine-type endopeptidase activity COG0595 An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and or decay COG0329 Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA) COG0527 aspartate kinase activity COG0136 Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate COG0452 Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine COG1052 Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family COG1873 PFAM PRC-barrel domain COG0612 Peptidase, M16 COG0726 polysaccharide deacetylase COG1185 polyribonucleotide nucleotidyltransferase activity COG0184 Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome COG0196 riboflavin kinase activity COG0130 Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs COG0858 One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Required for efficient processing of 16S rRNA. May interact with the 5'-terminal helix region of 16S rRNA COG1550 Protein conserved in bacteria COG0532 One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex COG1358 cellular component organization or biogenesis COG2740 Nucleic-acid-binding protein implicated in transcription termination COG0195 Participates in both transcription termination and antitermination COG0779 Required for maturation of 30S ribosomal subunits COG0311 Catalyzes the hydrolysis of glutamine to glutamate and ammonia as part of the biosynthesis of pyridoxal 5'-phosphate. The resulting ammonia molecule is channeled to the active site of PdxS COG2176 DNA-directed DNA polymerase activity COG0442 prolyl-tRNA aminoacylation COG0750 zinc metalloprotease COG0743 1-deoxy-D-xylulose-5-phosphate reductoisomerase activity COG4589 Belongs to the CDS family COG0020 Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids COG0233 cytoplasmic translational termination COG0528 UMP kinase activity COG0264 Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome COG0052 Belongs to the universal ribosomal protein uS2 family COG1402 creatininase COG1191 sigma factor activity COG1871 Probably deamidates glutamine residues to glutamate on methyl-accepting chemotaxis receptors (MCPs), playing an important role in chemotaxis COG1776 CheC inhibitor of MCP methylation COG2201 protein-glutamate methylesterase activity COG0455 bacterial-type flagellum organization COG1419 protein localization to endoplasmic reticulum COG4821 SIS domain COG1298 Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin COG1377 Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin COG1684 flagellar biosynthetic protein fliR COG1987 bacterial-type flagellum assembly COG1338 Plays a role in the flagellum-specific transport system COG3190 flagellar COG2201 protein-glutamate methylesterase activity COG2201 protein-glutamate methylesterase activity COG1776 CheC inhibitor of MCP methylation COG1886 FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation COG1868 FliM is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation COG1582 Flagellar protein (FlbD) COG4786 Flagellar basal body rod COG1843 Required for flagellar hook formation. May act as a scaffolding protein COG1157 protein secretion by the type III secretion system COG1317 bacterial-type flagellum organization COG1536 FliG is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation COG0664 - Catabolite gene activator and regulatory subunit of cAMP-dependent protein COG1766 The M ring may be actively involved in energy transduction COG1677 Flagellar hook-basal body complex protein FliE COG1558 bacterial-type flagellum-dependent cell motility COG1815 bacterial-type flagellum-dependent cell motility COG4465 DNA-binding protein that represses the expression of many genes that are induced as cells make the transition from rapid exponential growth to stationary phase. It is a GTP-binding protein that senses the intracellular GTP concentration as an indicator of nutritional limitations. At low GTP concentration it no longer binds GTP and stop to act as a transcriptional repressor COG1220 this subunit has chaperone activity. The binding of ATP and its subsequent hydrolysis by HslU are essential for unfolding of protein substrates subsequently hydrolyzed by HslV. HslU recognizes the N-terminal part of its protein substrates and unfolds these before they are guided to HslV for hydrolysis COG5405 Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery COG4974 Belongs to the 'phage' integrase family COG1206 Catalyzes the folate-dependent formation of 5-methyl- uridine at position 54 (M-5-U54) in all tRNAs COG0550 Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone COG0758 DNA mediated transformation COG0074 Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit COG0045 succinate-CoA ligase (ADP-forming) activity COG0164 Endonuclease that specifically degrades the RNA of RNA- DNA hybrids COG0664 - Catabolite gene activator and regulatory subunit of cAMP-dependent protein COG0335 large ribosomal subunit rRNA binding COG0336 Belongs to the RNA methyltransferase TrmD family COG0806 An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes COG1837 Belongs to the UPF0109 family COG0228 four-way junction DNA binding COG0541 Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY COG2739 Might take part in the signal recognition particle (SRP) pathway. This is inferred from the conservation of its genetic proximity to ftsY ffh. May be a regulatory protein COG0552 protein localization to endoplasmic reticulum COG1196 nuclear chromosome segregation COG2223 nitrite transmembrane transporter activity COG4840 Belongs to the UPF0435 family COG0571 ribonuclease III activity COG0236 Carrier of the growing fatty acid chain in fatty acid biosynthesis COG1028 Short-chain dehydrogenase reductase Sdr COG0331 [acyl-carrier-protein] S-malonyltransferase activity COG0416 fatty acid biosynthetic process COG1349 DNA-binding transcription factor activity COG1200 Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y-DNA) COG1760 l-serine dehydratase COG1760 l-serine dehydratase COG1461 Dihydroxyacetone kinase COG1302 Protein conserved in bacteria COG0227 Belongs to the bacterial ribosomal protein bL28 family COG0036 Belongs to the ribulose-phosphate 3-epimerase family COG1162 GTPase activity COG0515 serine threonine protein kinase COG2815 serine threonine protein kinase COG0631 protein serine/threonine phosphatase activity COG0820 rRNA (adenine-C2-)-methyltransferase activity COG0144 Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA COG0781 Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons COG0223 Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus COG1198 Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA COG0452 Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine COG1758 RNA polymerase activity COG0194 GDP metabolic process COG2052 Domain of unknown function (DUF370) COG1561 YicC-like family, N-terminal region COG0474 ATPase, P-type transporting, HAD superfamily, subfamily IC COG0172 Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec) COG2826 transposase and inactivated derivatives, IS30 family COG2826 transposase and inactivated derivatives, IS30 family COG2826 transposase and inactivated derivatives, IS30 family COG2896 Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate COG1526 Required for formate dehydrogenase (FDH) activity. Acts as a sulfur carrier protein that transfers sulfur from IscS to the molybdenum cofactor prior to its insertion into FDH COG2223 nitrite transmembrane transporter activity COG5609 conserved protein (DUF2294) COG2226 methyltransferase COG0461 Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP) COG0284 orotidine-5'-phosphate decarboxylase activity COG0167 dihydroorotate dehydrogenase activity COG0543 2 iron, 2 sulfur cluster binding COG0458 carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity COG0505 Belongs to the CarA family COG0044 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides COG0540 Belongs to the ATCase OTCase family COG2233 PERMEase COG2065 Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant COG0564 pseudouridine synthase activity COG0597 This protein specifically catalyzes the removal of signal peptides from prolipoproteins COG1734 Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters COG0060 amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile) COG3599 regulation of cell shape COG2302 S4 RNA-binding domain COG0762 integral membrane protein COG1799 cell septum assembly COG0325 Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis COG1496 oxidoreductase activity COG1873 PFAM PRC-barrel domain COG0861 Integral membrane protein TerC family COG1191 sigma factor activity COG1191 sigma factor activity COG0860 N-Acetylmuramoyl-L-alanine amidase COG0206 Essential cell division protein that forms a contractile ring structure (Z ring) at the future cell division site. The regulation of the ring assembly controls the timing and the location of cell division. One of the functions of the FtsZ ring is to recruit other cell division proteins to the septum to produce a new cell wall between the dividing cells. Binds GTP and shows GTPase activity COG0849 cell division COG0849 cell division COG3856 small basic protein COG3879 Bacterial protein of unknown function (DUF881) COG3879 Bacterial protein of unknown function (DUF881) COG1589 Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic. May control correct divisome assembly COG0812 UDP-N-acetylmuramate dehydrogenase activity COG0707 Cell wall formation. Catalyzes the transfer of a GlcNAc subunit on undecaprenyl-pyrophosphoryl-MurNAc-pentapeptide (lipid intermediate I) to form undecaprenyl-pyrophosphoryl-MurNAc- (pentapeptide)GlcNAc (lipid intermediate II) COG0772 Belongs to the SEDS family COG0772 Belongs to the SEDS family COG0772 Belongs to the SEDS family COG0771 Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA) COG0489 protein tyrosine kinase activity COG0472 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan COG0472 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan COG0770 UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity COG0769 Catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan COG0768 penicillin binding COG0768 penicillin binding COG4839 cell division protein FtsL COG0275 rRNA processing COG2001 Belongs to the MraZ family COG4365 Involved in bacillithiol (BSH) biosynthesis. May catalyze the last step of the pathway, the addition of cysteine to glucosamine malate (GlcN-Mal) to generate BSH COG1893 Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid COG0454 -acetyltransferase COG0333 Belongs to the bacterial ribosomal protein bL32 family COG1399 metal-binding, possibly nucleic acid-binding protein COG1323 Belongs to the UPF0348 family COG3480 Lon protease (S16) C-terminal proteolytic domain COG3480 Lon protease (S16) C-terminal proteolytic domain COG1752 Esterase of the alpha-beta hydrolase superfamily COG2194 sulfuric ester hydrolase activity COG3314 Sporulation integral membrane protein YlbJ COG0669 Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate COG0742 ribosomal rna small subunit methyltransferase COG2814 Major facilitator Superfamily COG4471 UPF0298 protein COG3679 Belongs to the UPF0342 family COG4294 response to UV COG0726 polysaccharide deacetylase COG2340 Cysteine-rich secretory protein family COG2905 signal-transduction protein containing cAMP-binding and CBS domains COG0628 permease COG2322 membrane COG3125 oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor COG1845 cytochrome c oxidase, subunit III COG0843 Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B COG1622 oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor COG2010 Cytochrome c COG0109 protoheme IX farnesyltransferase activity COG1612 heme a metabolic process COG0076 glutamate decarboxylase activity COG1038 Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second COG4838 Belongs to the UPF0358 family COG2066 Belongs to the glutaminase family COG2041 Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. The catalytic subunit MsrP is non-stereospecific, being able to reduce both (R-) and (S-) diastereoisomers of methionine sulfoxide COG1875 ATPase related to phosphate starvation-inducible protein PhoH COG1217 gtp-binding protein TYPA COG2084 Dehydrogenase COG0483 inositol monophosphate 1-phosphatase activity COG4493 Belongs to the UPF0637 family COG4476 Belongs to the UPF0223 family COG1982 Orn Lys Arg decarboxylase major COG4129 membrane COG1725 Transcriptional regulator COG1725 Transcriptional regulator COG0022 dehydrogenase e1 component COG0242 peptide deformylase activity COG0561 phosphatase activity COG0561 phosphatase activity COG5503 Protein of unknown function (DUF1447) COG0595 An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and or decay COG0569 domain protein COG0526 COG0526, thiol-disulfide isomerase and thioredoxins COG0450 alkyl hydroperoxide reductase COG0668 transmembrane transport COG1473 amidohydrolase COG2171 N-acyltransferase activity COG1593 TRAP-type C4-dicarboxylate transport system, large permease component COG3090 Trap-type c4-dicarboxylate transport system, small permease component COG1593 TRAP-type C4-dicarboxylate transport system, large permease component COG3090 Trap-type c4-dicarboxylate transport system, small permease component COG1638 TRAP-type C4-dicarboxylate transport system periplasmic component COG1023 phosphogluconate dehydrogenase (decarboxylating) activity COG1737 Transcriptional regulator COG2224 Isocitrate lyase COG0624 Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls COG0819 Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway COG1116 anion transmembrane transporter activity COG0600 ABC-type nitrate sulfonate bicarbonate transport system permease component COG0715 COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components COG0668 transmembrane transport COG0438 transferase activity, transferring glycosyl groups COG2107 Catalyzes the conversion of cyclic dehypoxanthine futalosine (cyclic DHFL) into 1,4-dihydroxy-6-naphthoate, a step in the biosynthesis of menaquinone (MK, vitamin K2) COG0775 Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively COG2271 Major facilitator Superfamily COG1167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs COG1167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs COG0577 efflux transmembrane transporter activity COG0577 efflux transmembrane transporter activity COG1136 (ABC) transporter COG1136 (ABC) transporter COG5002 protein histidine kinase activity COG5002 protein histidine kinase activity COG0745 RESPONSE REGULATOR receiver COG0745 RESPONSE REGULATOR receiver COG0501 Belongs to the peptidase M48B family COG0673 inositol 2-dehydrogenase activity COG0591 Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family COG0661 Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis COG0583 DNA-binding transcription factor activity COG0128 3-phosphoshikimate 1-carboxyvinyltransferase activity COG0784 Response regulator, receiver COG4191 Histidine kinase COG2066 Belongs to the glutaminase family COG0737 Belongs to the 5'-nucleotidase family COG2021 Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine COG0662 Cupin 2, conserved barrel domain protein COG3250 beta-galactosidase activity COG3835 regulator COG0831 urea catabolic process COG1012 belongs to the aldehyde dehydrogenase family COG0506 proline dehydrogenase activity COG0389 Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII COG1742 UPF0060 membrane protein COG0832 Belongs to the urease beta subunit family COG0697 spore germination COG2249 NAD(P)H dehydrogenase (quinone) activity COG2211 Major facilitator Superfamily COG1638 TRAP-type C4-dicarboxylate transport system periplasmic component COG4565 transcriptional regulatory protein COG3290 protein histidine kinase activity COG0747 negative chemotaxis COG0747 negative chemotaxis COG0804 urea catabolic process COG1070 Carbohydrate kinase COG2115 Belongs to the xylose isomerase family COG1940 carbohydrate kinase activity COG0803 Belongs to the bacterial solute-binding protein 9 family COG3443 Belongs to the bacterial solute-binding protein 9 family COG0508 dehydrogenase complex catalyzes the overall conversion of COG0022 dehydrogenase e1 component COG1071 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor COG1249 Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family COG1249 Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family COG0334 Belongs to the Glu Leu Phe Val dehydrogenases family COG2371 Involved in urease metallocenter assembly. Binds nickel. Probably functions as a nickel donor during metallocenter assembly COG3290 protein histidine kinase activity COG3829 transcription factor binding COG3290 protein histidine kinase activity COG3829 transcription factor binding COG0463 Glycosyl transferase, family 2 COG0745 RESPONSE REGULATOR receiver COG0750 zinc metalloprotease COG0497 DNA recombination COG1438 arginine binding COG1189 Ribosomal RNA methyltransferase RrmJ FtsJ COG1154 Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP) COG0142 geranyltranstransferase activity COG1722 exodeoxyribonuclease VII activity COG1570 exodeoxyribonuclease VII activity COG0190 Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate COG0781 Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons COG0378 Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG COG1302 Protein conserved in bacteria COG0439 Biotin carboxylase COG0511 ligase activity, forming carbon-carbon bonds COG0829 nickel cation binding COG3854 ATPases associated with a variety of cellular activities COG0231 Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase COG0006 proline dipeptidase activity COG0757 Catalyzes a trans-dehydration via an enolate intermediate COG3872 metal-dependent enzyme COG1752 Esterase of the alpha-beta hydrolase superfamily COG1321 iron dependent repressor COG1533 DNA photolyase activity COG0209 Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides COG0095 Lipoate-protein ligase COG0607 Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS COG1003 The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor COG0403 The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor COG4608 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG0404 The glycine cleavage system catalyzes the degradation of glycine COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG4537 Required for transformation and DNA binding COG0759 Could be involved in insertion of integral membrane proteins into the membrane COG0386 Belongs to the glutathione peroxidase family COG1459 type II secretion system COG2804 Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB COG0210 DNA helicase COG1418 mRNA catabolic process COG0623 enoyl-[acyl-carrier-protein] reductase (NADH) activity COG0475 glutathione-regulated potassium exporter activity COG0589 response to stress COG0639 Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP COG0564 pseudouridine synthase activity COG0061 Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP COG2357 RelA SpoT domain protein COG0741 lytic transglycosylase activity COG0243 molybdopterin cofactor binding COG2346 COG2346, Truncated hemoglobins COG2761 dithiol-disulfide isomerase involved in polyketide biosynthesis COG1164 Oligoendopeptidase f COG4469 Competence protein COG1502 Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol COG4862 establishment of competence for transformation COG0861 Integral membrane protein TerC family COG1393 Belongs to the ArsC family COG0456 acetyltransferase COG1272 protein, Hemolysin III COG1418 mRNA catabolic process COG0180 Tryptophanyl-tRNA synthetase COG5504 Zn-dependent protease COG1072 (Pantothenic acid kinase)) COG3773 Cell wall hydrolase COG0617 tRNA 3'-terminal CCA addition COG0332 Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids COG2226 methyltransferase COG2267 carboxylic ester hydrolase activity COG0078 Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline COG0458 carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity COG0505 Belongs to the CarA family COG4992 N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity COG0548 Belongs to the acetylglutamate kinase family. ArgB subfamily COG1364 Catalyzes two activities which are involved in the cyclic version of arginine biosynthesis the synthesis of N- acetylglutamate from glutamate and acetyl-CoA as the acetyl donor, and of ornithine by transacetylation between N(2)-acetylornithine and glutamate COG0002 Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde COG0366 Alpha amylase catalytic COG1999 signal sequence binding COG1999 signal sequence binding COG3336 cytochrome c oxidase COG1195 it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP COG0444 Belongs to the ABC transporter superfamily COG0444 Belongs to the ABC transporter superfamily COG0444 Belongs to the ABC transporter superfamily COG0561 phosphatase activity COG1396 sequence-specific DNA binding COG1296 Branched-chain amino acid permease (Azaleucine resistance) COG0553 Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair COG1595 DNA-templated transcription, initiation COG1284 Uncharacterised 5xTM membrane BCR, YitT family COG1284 COG1073 alpha beta COG0607 Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS COG0628 permease COG1609 Transcriptional regulator COG5662 AntiSigma factor COG2182 Extracellular solute-binding protein COG2270 Major facilitator Superfamily COG1280 lysine exporter protein (LysE YggA) COG0013 Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain COG1624 Catalyzes the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP), a second messenger used to regulate differing processes in different bacteria COG0534 Mate efflux family protein COG2358 TRAP transporter, solute receptor (TAXI family COG2358 TRAP transporter, solute receptor (TAXI family COG0001 glutamate-1-semialdehyde 2,1-aminomutase activity COG1509 lysine 2,3-aminomutase activity COG2204 response regulator COG2204 response regulator COG0778 Nitroreductase COG1703 isobutyryl-CoA mutase activity COG1884 Catalyzes the reversible interconversion of isobutyryl- CoA and n-butyryl-CoA, using radical chemistry. Also exhibits GTPase activity, associated with its G-protein domain (MeaI) that functions as a chaperone that assists cofactor delivery and proper holo-enzyme assembly COG2185 Catalyzes the reversible interconversion of isobutyryl- CoA and n-butyryl-CoA, using radical chemistry. Also exhibits GTPase activity, associated with its G-protein domain (MeaI) that functions as a chaperone that assists cofactor delivery and proper holo-enzyme assembly COG1109 Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate COG1884 Catalyzes the reversible interconversion of isobutyryl- CoA and n-butyryl-CoA, using radical chemistry. Also exhibits GTPase activity, associated with its G-protein domain (MeaI) that functions as a chaperone that assists cofactor delivery and proper holo-enzyme assembly COG4799 Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta COG1309 transcriptional regulator COG1309 transcriptional regulator COG1284 Uncharacterised 5xTM membrane BCR, YitT family COG1284 COG0449 glutamine-fructose-6-phosphate transaminase (isomerizing) activity COG0835 chemotaxis COG0643 Histidine kinase COG2198 Histidine kinase COG3300 MHYT domain COG5001 Diguanylate cyclase COG3638 Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system COG3639 organic phosphonate transmembrane transporter activity COG3639 organic phosphonate transmembrane transporter activity COG3639 organic phosphonate transmembrane transporter activity COG1074 ATP-dependent DNA helicase activity COG3857 The heterodimer acts as both an ATP-dependent DNA helicase and an ATP-dependent, dual-direction single-stranded exonuclease. Recognizes the chi site generating a DNA molecule suitable for the initiation of homologous recombination COG0239 Important for reducing fluoride concentration in the cell, thus reducing its toxicity COG0239 Important for reducing fluoride concentration in the cell, thus reducing its toxicity COG1117 ATPase-coupled phosphate ion transmembrane transporter activity COG0581 inorganic phosphate transmembrane transporter activity COG0573 inorganic phosphate transmembrane transporter activity COG0226 Part of the ABC transporter complex PstSACB involved in phosphate import COG0492 ferredoxin-NADP+ reductase activity COG0745 RESPONSE REGULATOR receiver COG0745 RESPONSE REGULATOR receiver COG0640 Transcriptional regulator COG0394 Belongs to the low molecular weight phosphotyrosine protein phosphatase family COG1055 Involved in arsenical resistance. Thought to form the channel of an arsenite pump COG0640 Transcriptional regulator COG0110 maltose O-acetyltransferase activity COG1234 tRNA 3'-trailer cleavage COG0601 transmembrane transport COG2205 protein histidine kinase activity COG4948 Mandelate Racemase Muconate Lactonizing COG1228 amidohydrolase COG0211 Belongs to the bacterial ribosomal protein bL27 family COG2868 ribosomal protein COG0261 This protein binds to 23S rRNA in the presence of protein L20 COG1530 ribonuclease E activity COG1994 Peptidase M50 COG0739 heme binding COG0746 molybdenum cofactor guanylyltransferase activity COG0314 molybdopterin synthase activity COG1763 Mo-molybdopterin cofactor biosynthetic process COG0303 'Molybdopterin COG0521 Mo-molybdopterin cofactor biosynthetic process COG0315 cyclic pyranopterin monophosphate synthase activity COG0693 protein deglycase activity COG2894 cell division COG0850 regulation of cytokinetic process COG2891 Involved in formation of the rod shape of the cell. May also contribute to regulation of formation of penicillin-binding proteins COG1792 Involved in formation and maintenance of cell shape COG1077 Cell shape determining protein MreB Mrl COG2003 Belongs to the UPF0758 family COG0424 maF-like protein COG1989 Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue COG3706 GGDEF domain COG0285 dihydrofolate synthase activity COG0525 valine-tRNA ligase activity COG1388 LysM domain COG1388 LysM domain COG0001 glutamate-1-semialdehyde 2,1-aminomutase activity COG0113 porphobilinogen synthase activity COG1587 Uroporphyrinogen-III synthase COG0181 hydroxymethylbilane synthase activity COG0755 Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes COG0373 Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA) COG0218 Necessary for normal cell division and for the maintenance of normal septation COG0466 ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner COG0470 DNA polymerase III COG1067 ATP-dependent peptidase activity COG1219 ATP-dependent specificity component of the Clp protease. It directs the protease to specific substrates. Can perform chaperone functions in the absence of ClpP COG0544 peptidyl-prolyl cis-trans isomerase activity COG0457 Tetratricopeptide repeat COG1477 protein flavinylation COG0066 3-isopropylmalate dehydratase activity COG2318 DinB family COG0065 Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate COG0473 3-isopropylmalate dehydrogenase activity COG0119 Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate) COG0059 Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate COG0440 acetolactate synthase activity COG0028 Belongs to the TPP enzyme family COG0129 dihydroxy-acid dehydratase activity COG0622 Phosphoesterase COG0127 Pyrophosphatase that catalyzes the hydrolysis of nucleoside triphosphates to their monophosphate derivatives, with a high preference for the non-canonical purine nucleotides XTP (xanthosine triphosphate), dITP (deoxyinosine triphosphate) and ITP. Seems to function as a house-cleaning enzyme that removes non-canonical purine nucleotides from the nucleotide pool, thus preventing their incorporation into DNA RNA and avoiding chromosomal lesions COG0689 Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates COG5401 PFAM Sporulation and spore germination COG1080 General (non sugar-specific) component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (sugar PTS). This major carbohydrate active-transport system catalyzes the phosphorylation of incoming sugar substrates concomitantly with their translocation across the cell membrane. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) COG1925 phosphoenolpyruvate-dependent sugar phosphotransferase system COG2197 response regulator COG0456 acetyltransferase COG1846 Transcriptional regulator COG2364 Membrane COG0251 oxidation-reduction process COG3739 integral membrane protein COG1051 belongs to the nudix hydrolase family COG0479 Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family COG1053 succinate dehydrogenase COG2009 succinate dehydrogenase COG0168 Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA COG1719 4-vinyl reductase, 4VR COG0322 excinuclease ABC activity COG3118 belongs to the thioredoxin family COG2025 fatty acid beta-oxidation using acyl-CoA dehydrogenase COG2086 electron transfer activity COG1024 Enoyl-CoA hydratase COG0318 PFAM AMP-dependent synthetase and ligase COG0318 PFAM AMP-dependent synthetase and ligase COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG0346 lactoylglutathione lyase activity COG3766 membrane COG1193 negative regulation of DNA recombination COG1387 Histidinol phosphatase and related hydrolases of the PHP family COG1796 DNA polymerase COG1286 toxin biosynthetic process COG3027 Activator of cell division through the inhibition of FtsZ GTPase activity, therefore promoting FtsZ assembly into bundles of protofilaments necessary for the formation of the division Z ring. It is recruited early at mid-cell but it is not essential for cell division COG0072 phenylalanine-tRNA ligase activity COG0073 Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation COG0016 Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily COG0566 Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family COG0384 phenazine biosynthesis protein PhzF COG2318 DinB family COG2220 Zn-dependent hydrolases of the beta-lactamase fold COG0740 serine-type endopeptidase activity COG0577 efflux transmembrane transporter activity COG1136 (ABC) transporter COG1136 (ABC) transporter COG2038 nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity COG1959 2 iron, 2 sulfur cluster binding COG4208 sulfate ABC transporter COG1118 Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system COG1363 Peptidase, m42 COG3326 Membrane COG0292 Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit COG0291 Belongs to the bacterial ribosomal protein bL35 family COG0290 IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins COG0441 Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr) COG1060 Radical SAM enzyme that catalyzes the addition of the adenosyl radical to the double bond of 3- (1- carboxyvinyl)oxy benzoate, leading to aminodeoxyfutalosine (AFL), a key intermediate in the formation of menaquinone (MK, vitamin K2) from chorismate COG1136 (ABC) transporter COG1136 (ABC) transporter COG1484 DNA-dependent DNA replication COG3611 Membrane attachment protein COG1327 Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes COG1586 Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine COG0057 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity COG0237 dephospho-CoA kinase activity COG1971 Probably functions as a manganese efflux pump COG0266 class I DNA-(apurinic or apyrimidinic site) endonuclease activity COG0258 In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity COG0749 In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity COG0577 efflux transmembrane transporter activity COG0577 efflux transmembrane transporter activity COG0330 HflC and HflK could COG0330 HflC and HflK could COG0745 RESPONSE REGULATOR receiver COG0039 L-malate dehydrogenase activity COG0538 isocitrate dehydrogenase activity COG0372 Belongs to the citrate synthase family COG2707 UPF0756 membrane protein COG3030 protein affecting phage T7 exclusion by the F plasmid COG0205 6-phosphofructokinase activity COG0825 malonyl-CoA metabolic process COG0777 Component of the acetyl coenzyme A carboxylase (ACC) complex. Biotin carboxylase (BC) catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the transcarboxylase to acetyl-CoA to form malonyl- CoA COG2186 Transcriptional regulator COG0281 malic enzyme COG0281 malic enzyme COG0587 DNA-directed DNA polymerase activity COG0618 3'(2'),5'-bisphosphate nucleotidase activity COG2205 protein histidine kinase activity COG4109 DRTGG domain COG2220 Zn-dependent hydrolases of the beta-lactamase fold COG0006 proline dipeptidase activity COG1028 Short-chain dehydrogenase reductase Sdr COG1131 (ABC) transporter COG0589 response to stress COG0165 Argininosuccinate lyase COG0137 argininosuccinate synthase activity COG2217 Heavy metal translocating P-type atpase COG3481 metal-dependent phosphohydrolase, HD sub domain COG0282 Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction COG0827 DNA restriction-modification system COG1277 ABC-type transport system involved in multi-copper enzyme maturation permease component COG2077 Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides COG3874 Sporulation protein YtfJ COG1714 RDD family COG0616 signal peptide processing COG0061 Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP COG1574 metal-dependent hydrolase with the TIM-barrel fold COG0365 Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA COG0301 tRNA thio-modification COG0747 negative chemotaxis COG0747 negative chemotaxis COG1104 cysteine desulfurase activity COG4477 modulates the frequency and position of FtsZ ring formation. Inhibits FtsZ ring formation at polar sites. Interacts either with FtsZ or with one of its binding partners to promote depolymerization COG1387 Histidinol phosphatase and related hydrolases of the PHP family COG1309 transcriptional regulator COG1956 GAF domain-containing protein COG0522 One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit COG2211 Major facilitator Superfamily COG1595 DNA-templated transcription, initiation COG1285 pathogenesis COG1285 pathogenesis COG0162 Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction tyrosine is first activated by ATP to form Tyr- AMP and then transferred to the acceptor end of tRNA(Tyr) COG1609 Transcriptional regulator COG0365 Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA COG0454 -acetyltransferase COG0517 IMP dehydrogenase activity COG0123 including yeast histone deacetylase and acetoin utilization protein COG0775 Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively COG1291 archaeal or bacterial-type flagellum-dependent cell motility COG1605 Chorismate mutase COG2876 3-deoxy-7-phosphoheptulonate synthase activity COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG2190 (PTS) system COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG2190 (PTS) system COG4980 gas vesicle protein COG2309 aminopeptidase activity COG0773 UDP-N-acetylmuramate-L-alanine ligase activity COG1674 ftsk spoiiie COG0073 Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation COG4848 Belongs to the UPF0354 family COG0526 COG0526, thiol-disulfide isomerase and thioredoxins COG3711 transcriptional antiterminator COG3711 transcriptional antiterminator COG1986 Phosphatase that hydrolyzes non-canonical purine nucleotides such as XTP and ITP to their respective diphosphate derivatives. Probably excludes non-canonical purines from DNA precursor pool, thus preventing their incorporation into DNA and avoiding chromosomal lesions COG1363 Peptidase, m42 COG5584 Small secreted protein COG0217 transcriptional regulatory protein COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG0220 tRNA (guanine-N7-)-methyltransferase activity COG0510 thiamine kinase activity COG1523 belongs to the glycosyl hydrolase 13 family COG0788 formyltetrahydrofolate deformylase activity COG1346 cytolysis COG1380 Effector of murein hydrolase LrgA COG0031 Belongs to the cysteine synthase cystathionine beta- synthase family COG0624 Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls COG1187 pseudouridine synthase activity COG2244 polysaccharide biosynthetic process COG2081 HI0933 family COG0495 leucyl-tRNA aminoacylation COG2814 Major facilitator Superfamily COG2008 Catalyzes the cleavage of L-allo-threonine and L- threonine to glycine and acetaldehyde COG1242 4 iron, 4 sulfur cluster binding COG2519 Catalyzes the S-adenosyl-L-methionine-dependent formation of N(1)-methyladenine at position 58 (m1A58) in tRNA COG0288 reversible hydration of carbon dioxide COG2267 carboxylic ester hydrolase activity COG0663 COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily COG0609 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG2329 Antibiotic biosynthesis monooxygenase COG4509 Sortase family COG5386 Cell surface protein COG5386 Cell surface protein COG0192 Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme COG1866 Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA COG1733 regulation of RNA biosynthetic process COG2259 Doxx family COG2514 catechol 2,3-dioxygenase activity COG1506 peptidase COG0494 nUDIX hydrolase COG2814 Major facilitator Superfamily COG1168 Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities COG1012 belongs to the aldehyde dehydrogenase family COG2814 Major facilitator Superfamily COG0431 NADPH-dependent FMN reductase COG3583 domain protein COG3584 3D domain protein COG3583 domain protein COG3584 3D domain protein COG2188 Transcriptional regulator COG2188 Transcriptional regulator COG4821 SIS domain COG3458 cephalosporin-C deacetylase activity COG0471 metal ion transport COG4149 molybdate abc transporter COG0725 ABC transporter, periplasmic molybdate-binding protein COG1226 (belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family) COG1959 2 iron, 2 sulfur cluster binding COG0166 Belongs to the GPI family COG1979 alcohol dehydrogenase COG2155 Conserved Protein COG1098 S1 RNA binding domain COG2145 Catalyzes the phosphorylation of the hydroxyl group of 4-methyl-5-beta-hydroxyethylthiazole (THZ) COG0436 Aminotransferase COG1522 sequence-specific DNA binding COG5506 Protein of unknown function (DUF1694) COG1854 S-ribosylhomocysteine lyase activity COG1295 ribonuclease BN COG0776 regulation of translation COG1714 RDD family COG1268 BioY protein COG2056 Na+-H+ antiporter family COG1209 Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis COG1088 dTDP-glucose 4,6-dehydratase activity COG1898 dTDP-4-dehydrorhamnose 3,5-epimerase activity COG0463 Glycosyl transferase, family 2 COG0438 transferase activity, transferring glycosyl groups COG0451 ADP-glyceromanno-heptose 6-epimerase activity COG0451 ADP-glyceromanno-heptose 6-epimerase activity COG0471 metal ion transport COG3273 potassium ion transport COG0529 Catalyzes the synthesis of activated sulfate COG0550 Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone COG0768 penicillin binding COG1638 TRAP-type C4-dicarboxylate transport system periplasmic component COG1593 TRAP-type C4-dicarboxylate transport system, large permease component COG3090 Trap-type c4-dicarboxylate transport system, small permease component COG2376 Dihydroxyacetone kinase COG2376 Dihydroxyacetone kinase COG1309 transcriptional regulator COG3412 dihydroxyacetone kinase, phosphotransfer subunit COG1461 Dihydroxyacetone kinase COG2334 A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response COG1963 PFAM Acid phosphatase vanadium-dependent haloperoxidase related COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component COG3584 3D domain protein COG1252 NADH dehydrogenase COG0492 ferredoxin-NADP+ reductase activity COG0316 Belongs to the HesB IscA family COG1060 Radical SAM enzyme that catalyzes the addition of the adenosyl radical to the double bond of 3- (1- carboxyvinyl)oxy benzoate, leading to aminodeoxyfutalosine (AFL), a key intermediate in the formation of menaquinone (MK, vitamin K2) from chorismate COG0253 Catalyzes the stereoinversion of LL-2,6- diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso- DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan COG4844 belongs to the COG1252 NADH dehydrogenase COG4837 Protein of unknown function (DUF1462) COG0694 Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins COG0083 homoserine kinase activity COG0498 Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine COG0460 homoserine dehydrogenase COG2334 A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response COG2205 protein histidine kinase activity COG0745 RESPONSE REGULATOR receiver COG0647 UMP catabolic process COG2445 Protein of unknown function DUF86 COG1494 fructose-1,6-bisphosphatase COG1494 fructose-1,6-bisphosphatase COG3842 ATPase activity COG4470 Protein conserved in bacteria COG0320 Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives COG0739 heme binding COG0733 neurotransmitter:sodium symporter activity COG4214 carbohydrate transport COG1129 ABC transporter COG4213 ABC transporter substrate-binding protein COG1917 Cupin 2, conserved barrel domain protein COG4977 sequence-specific DNA binding COG2197 response regulator COG1757 Na H antiporter COG0262 Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis COG0207 Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis COG3377 Domain of unknown function (DUF1805) COG0737 Belongs to the 5'-nucleotidase family COG1801 Protein of unknown function DUF72 COG0719 Fe-S assembly protein COG0822 iron-sulfur transferase activity COG0822 iron-sulfur transferase activity COG0520 Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine COG0719 Fe-S assembly protein COG0396 ATPase activity COG0599 Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity COG4512 PFAM Accessory gene regulator B COG1464 Belongs to the NlpA lipoprotein family COG2011 ABC-type metal ion transport system permease component COG1135 Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system COG0572 uridine kinase COG0509 glycine decarboxylation via glycine cleavage system COG1393 Belongs to the ArsC family COG1960 acyl-CoA dehydrogenase activity COG0183 Belongs to the thiolase family COG1024 Enoyl-CoA hydratase COG1250 3-hydroxyacyl-CoA dehydrogenase COG5577 PFAM Coat F domain COG1131 (ABC) transporter COG1280 lysine exporter protein (LysE YggA) COG0789 Transcriptional regulator COG4978 Transcriptional regulator COG0432 Pfam Uncharacterised protein family UPF0047 COG2268 Band 7 protein COG0590 tRNA wobble adenosine to inosine editing COG2207 Transcriptional regulator COG2189 Belongs to the N(4) N(6)-methyltransferase family COG1484 DNA-dependent DNA replication COG3723 Recombinational DNA repair protein, rece pathway COG5377 YqaJ viral recombinase family COG1396 sequence-specific DNA binding COG4974 Belongs to the 'phage' integrase family COG0691 Required for rescue of stalled ribosomes mediated by trans-translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene COG0557 exoribonuclease II activity COG1647 Serine aminopeptidase, S33 COG1314 P-P-bond-hydrolysis-driven protein transmembrane transporter activity COG0148 phosphopyruvate hydratase activity COG0696 Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate COG0149 triose-phosphate isomerase activity COG0126 phosphoglycerate kinase activity COG0057 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity COG1508 bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding COG0740 serine-type endopeptidase activity COG1925 phosphoenolpyruvate-dependent sugar phosphotransferase system COG1481 regulation of sporulation COG0391 Required for morphogenesis under gluconeogenic growth conditions COG1660 Displays ATPase and GTPase activities COG1051 belongs to the nudix hydrolase family COG0492 ferredoxin-NADP+ reductase activity COG0457 Tetratricopeptide repeat COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG2103 Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate COG1737 Transcriptional regulator COG0139 Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP COG0140 phosphoribosyl-ATP diphosphatase activity COG0107 imidazoleglycerol-phosphate synthase activity COG0106 1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase COG0118 IGPS catalyzes the conversion of PRFAR and glutamine to IGP, AICAR and glutamate. The HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of IGP and AICAR COG0131 Imidazoleglycerol-phosphate dehydratase COG0141 Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine COG0040 Catalyzes the condensation of ATP and 5-phosphoribose 1- diphosphate to form N'-(5'-phosphoribosyl)-ATP (PR-ATP). Has a crucial role in the pathway because the rate of histidine biosynthesis seems to be controlled primarily by regulation of hisG enzymatic activity COG3705 Required for the first step of histidine biosynthesis. May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine COG0110 maltose O-acetyltransferase activity COG0546 phosphoglycolate phosphatase activity COG0370 Transporter of a GTP-driven Fe(2 ) uptake system COG0682 Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins COG1493 Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr). The two antagonistic activities of HprK P are regulated by several intracellular metabolites, which change their concentration in response to the absence or presence of rapidly metabolisable carbon sources (glucose, fructose, etc.) in the growth medium. Therefore, by controlling the phosphorylation state of HPr, HPrK P is a sensor enzyme that plays a major role in the regulation of carbon metabolism and sugar transport it mediates carbon catabolite repression (CCR), and regulates PTS-catalyzed carbohydrate uptake and inducer exclusion COG1950 PFAM Membrane protein of COG1983 PspC domain protein COG3595 metallopeptidase activity COG0178 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 COG0556 nucleotide-excision repair COG3764 Sortase (surface protein transpeptidase) COG0265 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain COG0793 Belongs to the peptidase S41A family COG3409 Peptidoglycan-binding domain 1 protein COG0739 heme binding COG2177 Part of the ABC transporter FtsEX involved in COG2884 Cell division ATP-binding protein ftsE COG4654 Cytochrome c, class I COG1284 Uncharacterised 5xTM membrane BCR, YitT family COG1284 COG1186 Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA COG0653 protein targeting COG1544 Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase COG1278 Cold shock COG1516 flagellar protein fliS COG1345 Required for morphogenesis and for the elongation of the flagellar filament by facilitating polymerization of the flagellin monomers at the tip of growing filament. Forms a capping structure, which prevents flagellin subunits (transported through the central channel of the flagellum) from leaking out without polymerization at the distal end COG1334 flagellar protein FlaG COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG1551 Could accelerate the degradation of some genes transcripts potentially through selective RNA binding COG1699 Binds to the C-terminal region of flagellin, which is implicated in polymerization, and participates in the assembly of the flagellum COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG1256 bacterial-type flagellum assembly COG4786 Flagellar basal body rod COG1040 competence protein COG4098 Superfamily II DNA RNA helicase required for DNA uptake (late competence protein) COG1307 EDD domain protein, DegV family COG1739 Uncharacterized protein family UPF0029 COG2039 Removes 5-oxoproline from various penultimate amino acid residues except L-proline COG2207 Transcriptional regulator COG3708 Transcriptional regulator COG2207 Transcriptional regulator COG3708 Transcriptional regulator COG0601 transmembrane transport COG4608 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG0601 transmembrane transport COG1316 TRANSCRIPTIONal COG1316 TRANSCRIPTIONal COG2385 sporulation resulting in formation of a cellular spore COG2148 undecaprenyl-phosphate glucose phosphotransferase activity COG1210 Utp--glucose-1-phosphate uridylyltransferase COG1210 Utp--glucose-1-phosphate uridylyltransferase COG0769 Catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan COG1181 Belongs to the D-alanine--D-alanine ligase family COG1215 transferase activity, transferring glycosyl groups COG1215 transferase activity, transferring glycosyl groups COG1216 Glycosyl transferase, family 2 COG1134 teichoic acid transport COG1682 transport, permease protein COG0438 transferase activity, transferring glycosyl groups COG0860 N-Acetylmuramoyl-L-alanine amidase COG2247 cell wall binding repeat COG4464 protein tyrosine phosphatase activity COG0489 protein tyrosine kinase activity COG3944 biosynthesis protein COG0791 NLP P60 protein COG1388 LysM domain COG0845 Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family COG0577 efflux transmembrane transporter activity COG2072 flavoprotein involved in K transport COG1653 transport COG0395 ABC-type sugar transport system, permease component COG3507 Belongs to the glycosyl hydrolase 43 family COG5578 integral membrane protein COG2318 DinB family COG1653 transport COG1653 transport COG1518 maintenance of DNA repeat elements COG1609 Transcriptional regulator COG1523 belongs to the glycosyl hydrolase 13 family COG0584 glycerophosphoryl diester phosphodiesterase COG2812 DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity COG1343 CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Functions as a ssRNA-specific endoribonuclease. Involved in the integration of spacer DNA into the CRISPR cassette COG5444 nuclease activity COG0457 Tetratricopeptide repeat COG0463 Glycosyl transferase, family 2 COG1216 Glycosyl transferase, family 2 COG1216 Glycosyl transferase, family 2 COG2336 PFAM SpoVT AbrB COG2337 Toxic component of a toxin-antitoxin (TA) module COG0800 Aldolase COG0524 Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway COG1609 Transcriptional regulator COG0524 Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway COG1869 D-ribose catabolic process COG1129 ABC transporter COG1879 ABC-type sugar transport system periplasmic component COG0764 3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity COG4786 Flagellar basal body rod COG4786 Flagellar basal body rod COG1077 Cell shape determining protein MreB Mrl COG1609 Transcriptional regulator COG0517 IMP dehydrogenase activity COG0617 tRNA 3'-terminal CCA addition COG0618 3'(2'),5'-bisphosphate nucleotidase activity COG4147 Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family COG0739 heme binding COG2385 sporulation resulting in formation of a cellular spore COG0766 Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine COG4836 Membrane COG0355 proton-transporting ATP synthase activity, rotational mechanism COG0055 Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits COG0224 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is believed to be important in regulating ATPase activity and the flow of protons through the CF(0) complex COG0056 Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit COG0712 F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation COG0711 Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0) COG0636 F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation COG0356 it plays a direct role in the translocation of protons across the membrane COG0601 transmembrane transport COG1404 Belongs to the peptidase S8 family COG1404 Belongs to the peptidase S8 family COG0035 Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate COG0112 Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF- independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism COG4475 Protein of unknown function (DUF436) COG0698 ribose 5-phosphate isomerase COG0840 transmembrane signaling receptor activity COG1971 Probably functions as a manganese efflux pump COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG0009 L-threonylcarbamoyladenylate synthase COG0216 Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA COG1335 isochorismatase COG1435 thymidine kinase activity COG0254 rRNA binding COG1158 Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template COG0766 Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine COG0176 Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway COG0191 fructose-bisphosphate aldolase activity COG2204 response regulator COG0609 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG0609 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component COG0504 CTP synthase activity COG3343 RNA polymerase activity COG1703 isobutyryl-CoA mutase activity COG1884 Catalyzes the reversible interconversion of isobutyryl- CoA and n-butyryl-CoA, using radical chemistry. Also exhibits GTPase activity, associated with its G-protein domain (MeaI) that functions as a chaperone that assists cofactor delivery and proper holo-enzyme assembly COG2185 Catalyzes the reversible interconversion of isobutyryl- CoA and n-butyryl-CoA, using radical chemistry. Also exhibits GTPase activity, associated with its G-protein domain (MeaI) that functions as a chaperone that assists cofactor delivery and proper holo-enzyme assembly COG1960 acyl-CoA dehydrogenase activity COG1960 acyl-CoA dehydrogenase activity COG1250 3-hydroxyacyl-CoA dehydrogenase COG0718 Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection COG0183 Belongs to the thiolase family COG0247 lactate metabolic process COG2181 nitrate reductase activity COG1502 Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG2267 carboxylic ester hydrolase activity COG2839 Protein conserved in bacteria COG0018 arginyl-trna synthetase COG0010 Belongs to the arginase family COG1309 transcriptional regulator COG0421 Catalyzes the irreversible transfer of a propylamine group from the amino donor S-adenosylmethioninamine (decarboxy- AdoMet) to putrescine (1,4-diaminobutane) to yield spermidine COG0744 Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors COG1942 4-Oxalocrotonate Tautomerase COG3465 dGTPase activity COG1078 dGTPase activity COG1078 dGTPase activity COG1301 dicarboxylic acid transport COG4844 belongs to the COG0095 Lipoate-protein ligase COG0280 phosphate acetyltransferase COG3253 May function as heme-dependent peroxidase COG3773 Cell wall hydrolase COG2363 Small membrane protein COG0456 acetyltransferase COG0847 DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease COG0004 ammonium transporteR COG2368 4-hydroxyphenylacetate COG4565 transcriptional regulatory protein COG3290 protein histidine kinase activity COG1175 transmembrane transport COG0395 ABC-type sugar transport system, permease component COG0692 Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine COG0246 Mannitol dehydrogenase COG4668 phosphoenolpyruvate-dependent sugar phosphotransferase system COG3711 transcriptional antiterminator COG2213 PTS system mannitol-specific COG0778 Nitroreductase COG1182 Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity COG2031 fatty acid transporter COG2234 aminopeptidase activity COG0637 HAD-superfamily hydrolase subfamily IA, variant 3 COG2962 Rard protein COG0366 Alpha amylase catalytic COG5609 conserved protein (DUF2294) COG0665 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity COG0723 plastoquinol--plastocyanin reductase activity COG0028 Belongs to the TPP enzyme family COG5582 Belongs to the UPF0302 family COG1522 sequence-specific DNA binding COG2329 Antibiotic biosynthesis monooxygenase COG1733 regulation of RNA biosynthetic process COG2249 NAD(P)H dehydrogenase (quinone) activity COG2814 Major facilitator Superfamily COG5577 PFAM Coat F domain COG1132 (ABC) transporter COG1131 (ABC) transporter COG1028 Short-chain dehydrogenase reductase Sdr COG1028 Short-chain dehydrogenase reductase Sdr COG2610 gluconate transmembrane transporter activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0353 May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO COG0726 polysaccharide deacetylase COG1826 Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes COG0805 protein transport COG0156 8-amino-7-oxononanoate synthase activity COG0596 Alpha beta hydrolase COG4106 trans-aconitate 2-methyltransferase activity COG0745 RESPONSE REGULATOR receiver COG0642 Histidine kinase COG0840 transmembrane signaling receptor activity COG1482 cell wall glycoprotein biosynthetic process COG2188 Transcriptional regulator COG2723 6-phospho-beta-galactosidase activity COG1455 protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity COG1447 Phosphotransferase system cellobiose-specific component IIA COG1476 TRANSCRIPTIONal COG1440 protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity COG2513 Catalyzes the thermodynamically favored C-C bond cleavage of (2R,3S)-2-methylisocitrate to yield pyruvate and succinate COG2079 MmgE PrpD family protein COG0372 Belongs to the citrate synthase family COG0583 DNA-binding transcription factor activity COG1115 amino acid carrier protein COG1115 amino acid carrier protein COG4989 oxidoreductase activity COG0043 3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity COG1620 l-lactate permease COG0039 L-malate dehydrogenase activity COG0397 Uncharacterized ACR, YdiU/UPF0061 family COG1012 belongs to the aldehyde dehydrogenase family COG0523 cobalamin synthesis protein COG0334 Belongs to the Glu Leu Phe Val dehydrogenases family COG4992 N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity COG3829 transcription factor binding COG1757 Na H antiporter COG1063 alcohol dehydrogenase COG2265 Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family COG0579 oxidoreductase COG0717 Belongs to the dCTP deaminase family COG2220 Zn-dependent hydrolases of the beta-lactamase fold COG2755 lipolytic protein G-D-S-L family COG4988 ABC transporter COG4987 ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC COG1294 oxidase, subunit COG1294 oxidase, subunit COG1271 oxidase subunit COG1271 oxidase subunit COG2002 toxin-antitoxin pair type II binding COG2002 toxin-antitoxin pair type II binding COG1853 conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family COG1853 conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family COG0745 RESPONSE REGULATOR receiver COG1576 Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA COG3850 Histidine kinase COG5002 protein histidine kinase activity COG0457 Tetratricopeptide repeat COG0457 Tetratricopeptide repeat COG3212 peptidase COG3212 peptidase COG0265 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain COG1235 May be involved in the transport of PQQ or its precursor to the periplasm COG4853 Protein conserved in bacteria COG4863 YycH protein COG5002 protein histidine kinase activity COG0745 RESPONSE REGULATOR receiver COG0104 Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP COG0305 Participates in initiation and elongation during chromosome replication COG0359 binds to the 23S rRNA COG3887 signaling protein consisting of a modified GGDEF domain and a DHH domain COG4241 membrane COG1193 negative regulation of DNA recombination COG0582 viral genome integration into host DNA COG1182 Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity COG0789 Transcriptional regulator COG4978 Transcriptional regulator COG0789 Transcriptional regulator COG4978 Transcriptional regulator COG0238 Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit COG0629 single-stranded DNA binding COG0360 Binds together with S18 to 16S ribosomal RNA COG0012 GTP binding COG4481 Protein conserved in bacteria COG3949 Membrane COG1811 Na channel or pump COG1475 DNA binding COG1192 Involved in chromosome partitioning COG1475 DNA binding COG0357 Ribosomal RNA small subunit methyltransferase G COG0445 tRNA wobble uridine modification COG0486 Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34 COG1847 R3H domain protein COG0706 membrane insertase activity COG0594 ribonuclease P activity COG0230 Belongs to the bacterial ribosomal protein bL34 family COG3173 Aminoglycoside phosphotransferase COG0697 spore germination COG0640 Transcriptional regulator COG2169 Transcriptional regulator COG3290 protein histidine kinase activity COG4565 transcriptional regulatory protein COG0778 Nitroreductase COG0789 Transcriptional regulator COG0080 Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors COG1028 Short-chain dehydrogenase reductase Sdr COG2808 Putative FMN-binding domain COG0366 Alpha amylase catalytic COG0659 secondary active sulfate transmembrane transporter activity COG2226 methyltransferase COG0363 glucosamine-6-phosphate deaminase activity COG1820 Belongs to the metallo-dependent hydrolases superfamily. NagA family COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG1522 sequence-specific DNA binding COG0840 transmembrane signaling receptor activity COG3290 protein histidine kinase activity COG1280 lysine exporter protein (LysE YggA) COG1279 arginine transmembrane transporter activity COG1167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs COG0620 Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation COG3638 Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system COG1982 Orn Lys Arg decarboxylase major COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG0125 Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis COG0187 DNA topoisomerase II activity COG0628 permease COG1968 undecaprenyl-diphosphatase activity COG0569 domain protein COG0569 domain protein COG3638 Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system COG3639 organic phosphonate transmembrane transporter activity COG0470 DNA polymerase III COG1774 PSP1 C-terminal conserved region COG1653 transport COG2207 Transcriptional regulator COG4225 unsaturated rhamnogalacturonyl hydrolase activity COG1653 transport COG0673 inositol 2-dehydrogenase activity COG0385 Bile acid COG2721 sulfolactate sulfo-lyase activity COG4467 Involved in initiation control of chromosome replication COG0246 Mannitol dehydrogenase COG0561 phosphatase activity COG0703 Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate COG0209 Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides COG4123 Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC) COG0208 Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides COG0840 transmembrane signaling receptor activity COG1028 Short-chain dehydrogenase reductase Sdr COG1733 regulation of RNA biosynthetic process COG2827 Endonuclease containing a URI domain COG3842 ATPase activity COG1840 ABC-type Fe3 transport system, periplasmic component COG1178 ABC-type Fe3 transport system permease component COG0803 Belongs to the bacterial solute-binding protein 9 family COG0705 Rhomboid family COG0736 holo-[acyl-carrier-protein] synthase activity COG2834 Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane) COG0787 Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids COG0864 Transcriptional regulator COG0313 Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA COG2337 Toxic component of a toxin-antitoxin (TA) module COG1366 Belongs to the anti-sigma-factor antagonist family COG1366 Belongs to the anti-sigma-factor antagonist family COG2172 sigma factor antagonist activity COG2208 phosphoserine phosphatase activity COG1366 Belongs to the anti-sigma-factor antagonist family COG2172 sigma factor antagonist activity COG1191 sigma factor activity COG2183 response to ionizing radiation COG3091 SprT-like family COG1012 belongs to the aldehyde dehydrogenase family COG0626 cystathionine gamma-synthase activity COG0611 Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1 COG0802 atpase or kinase COG0188 A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner COG0073 Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation COG0143 Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation COG1214 PFAM Peptidase M22, glycoprotease COG0456 acetyltransferase COG0533 Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaE and TsaB. TsaD likely plays a direct catalytic role in this reaction COG2344 Modulates transcription in response to changes in cellular NADH NAD( ) redox state COG1826 Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes COG0805 protein transport COG2814 Major facilitator Superfamily COG1929 Belongs to the glycerate kinase type-1 family COG0084 hydrolase, TatD family' COG2608 mercury ion transmembrane transporter activity COG2217 Heavy metal translocating P-type atpase COG1937 Protein conserved in bacteria COG1266 CAAX protease self-immunity COG0234 Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter COG0459 protein refolding COG0747 negative chemotaxis COG0601 transmembrane transport COG4172 Belongs to the ABC transporter superfamily COG1695 Transcriptional regulator COG2124 cytochrome p450 COG2197 response regulator COG4585 Histidine kinase COG0030 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity COG2188 Transcriptional regulator COG0626 cystathionine gamma-synthase activity COG3457 Alanine racemase COG1015 Phosphotransfer between the C1 and C5 carbon atoms of pentose COG2723 6-phospho-beta-galactosidase activity COG0168 Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA COG0714 Associated with various cellular activities COG0714 Associated with various cellular activities COG1721 protein (some members contain a von Willebrand factor type A (vWA) domain COG4466 Protein conserved in bacteria COG1305 Transglutaminase-like COG0518 GMP synthase (glutamine-hydrolyzing) activity COG0519 Catalyzes the synthesis of GMP from XMP COG2252 PERMEase COG0369 Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component COG0155 Belongs to the nitrite and sulfite reductase 4Fe-4S domain family COG2223 nitrite transmembrane transporter activity COG1251 Belongs to the nitrite and sulfite reductase 4Fe-4S domain family COG2146 nitrite reductase [NAD(P)H] activity COG0243 molybdopterin cofactor binding COG2258 MOSC domain COG3424 synthase COG1755 Isoprenylcysteine carboxyl methyltransferase COG1595 DNA-templated transcription, initiation COG1947 Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol COG4843 Uncharacterized protein conserved in bacteria (DUF2179) COG0041 Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR) COG0026 Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR) COG0015 Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily COG0152 phosphoribosylaminoimidazolesuccinocarboxamide synthase activity COG1828 Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL COG0047 phosphoribosylformylglycinamidine synthase activity COG0046 Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL COG0034 Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine COG0503 Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis COG0150 phosphoribosylformylglycinamidine cyclo-ligase activity COG0299 Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate COG0138 bifunctional purine biosynthesis protein purh COG0151 Belongs to the GarS family COG1001 Belongs to the metallo-dependent hydrolases superfamily. Adenine deaminase family COG1470 cell adhesion involved in biofilm formation COG4496 protein, YerC YecD COG1001 Belongs to the metallo-dependent hydrolases superfamily. Adenine deaminase family COG0251 oxidation-reduction process COG0393 Putative heavy-metal-binding COG1646 35 carbon atoms) to the C3 hydroxyl of sn-glycerol-1-phosphate (G1P), producing heptaprenylglyceryl phosphate (HepGP). This reaction is an ether-bond-formation step in the biosynthesis of archaea-type G1P-based membrane lipids found in Bacillales COG0210 DNA helicase COG0272 DNA ligase that 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. It is essential for DNA replication and repair of damaged DNA COG4851 CamS sex pheromone cAM373 precursor COG2088 sporulation resulting in formation of a cellular spore COG1733 regulation of RNA biosynthetic process COG2226 methyltransferase COG1207 Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP- GlcNAc). The C-terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N-acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5- monophosphate (from uridine 5-triphosphate), a reaction catalyzed by the N-terminal domain COG0038 chloride channel COG0721 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. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln) COG0154 amidase activity COG0064 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. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln) COG3708 Transcriptional regulator COG0462 Involved in the biosynthesis of the central metabolite phospho-alpha-D-ribosyl-1-pyrophosphate (PRPP) via the transfer of pyrophosphoryl group from ATP to 1-hydroxyl of ribose-5-phosphate (Rib-5-P) COG3876 Protein conserved in bacteria COG1472 Belongs to the glycosyl hydrolase 3 family COG1597 lipid kinase activity COG1825 This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance COG1012 belongs to the aldehyde dehydrogenase family COG0095 Lipoate-protein ligase COG1404 Belongs to the peptidase S8 family COG1404 Belongs to the peptidase S8 family COG1404 Belongs to the peptidase S8 family COG2076 Multidrug Resistance protein COG2076 Multidrug Resistance protein COG2265 Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family COG0193 aminoacyl-tRNA hydrolase activity COG1388 LysM domain COG3942 CHAP domain COG0640 Transcriptional regulator COG3340 Belongs to the peptidase S51 family COG1197 Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site COG3090 Trap-type c4-dicarboxylate transport system, small permease component COG1904 glucuronate isomerase COG1312 Catalyzes the dehydration of D-mannonate COG1028 Short-chain dehydrogenase reductase Sdr COG2002 toxin-antitoxin pair type II binding COG1132 (ABC) transporter COG0178 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 COG2409 Drug exporters of the RND superfamily COG2244 polysaccharide biosynthetic process COG1917 Cupin 2, conserved barrel domain protein COG2207 Transcriptional regulator COG0697 spore germination COG3956 TIGRFAM MazG family protein COG1733 regulation of RNA biosynthetic process COG0843 Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog)) COG5577 PFAM Coat F domain COG2217 Heavy metal translocating P-type atpase COG2851 Citrate transporter COG0402 S-adenosylhomocysteine deaminase activity COG1529 Aldehyde oxidase and xanthine dehydrogenase COG2080 2 iron, 2 sulfur cluster binding COG0577 efflux transmembrane transporter activity COG1136 (ABC) transporter COG3195 allantoin biosynthetic process COG3648 Uricase COG3195 allantoin biosynthetic process COG3648 Uricase COG2351 hydroxyisourate hydrolase activity COG0075 2-aminoethylphosphonate-pyruvate transaminase activity COG0332 Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids COG3730 PTS system glucitol sorbitol-specific COG3732 PTS system glucitol sorbitol-specific COG1098 S1 RNA binding domain COG0161 adenosylmethionine-8-amino-7-oxononanoate transaminase activity COG0132 Catalyzes a mechanistically unusual reaction, the ATP- dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring COG1940 carbohydrate kinase activity COG0383 alpha-mannosidase activity COG0383 alpha-mannosidase activity COG3275 phosphorelay sensor kinase activity COG1653 transport COG2208 phosphoserine phosphatase activity COG3395 kinase activity COG1995 Catalyzes the NAD(P)-dependent oxidation of 4- (phosphohydroxy)-L-threonine (HTP) into 2-amino-3-oxo-4- (phosphohydroxy)butyric acid which spontaneously decarboxylates to form 3-amino-2-oxopropyl phosphate (AHAP) COG2610 gluconate transmembrane transporter activity COG2304 oxidoreductase activity COG1376 ErfK ybiS ycfS ynhG family protein COG1132 (ABC) transporter COG1132 (ABC) transporter COG1132 (ABC) transporter COG1131 (ABC) transporter COG2205 protein histidine kinase activity COG0745 RESPONSE REGULATOR receiver COG0515 serine threonine protein kinase COG4106 trans-aconitate 2-methyltransferase activity COG2244 polysaccharide biosynthetic process COG4362 Belongs to the NOS family. Bacterial NOS oxygenase subfamily COG0334 Belongs to the Glu Leu Phe Val dehydrogenases family COG2318 DinB family COG1105 Belongs to the carbohydrate kinase PfkB family COG1299 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG1445 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG1762 phosphoenolpyruvate-dependent sugar phosphotransferase system COG3859 Proton-coupled thiamine transporter YuaJ COG2966 Psort location CytoplasmicMembrane, score COG0018 arginyl-trna synthetase COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG2076 Multidrug Resistance protein COG1077 Cell shape determining protein MreB Mrl COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG2190 (PTS) system COG3711 transcriptional antiterminator COG1349 DNA-binding transcription factor activity COG0037 tRNA processing COG2207 Transcriptional regulator COG3011 Protein conserved in bacteria COG0385 Bile acid COG0534 Mate efflux family protein COG0634 Belongs to the purine pyrimidine phosphoribosyltransferase family COG0328 RNA-DNA hybrid ribonuclease activity COG3341 Caulimovirus viroplasmin COG1012 belongs to the aldehyde dehydrogenase family COG2059 Chromate COG2059 Chromate COG0465 Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins COG0366 Alpha amylase catalytic COG2188 Transcriptional regulator COG1785 Belongs to the alkaline phosphatase family COG2141 COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases COG1521 Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG0477 Major facilitator Superfamily COG0534 Mate efflux family protein COG0345 Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline COG0535 radical SAM domain protein COG1281 Redox regulated molecular chaperone. Protects both thermally unfolding and oxidatively damaged proteins from irreversible aggregation. Plays an important role in the bacterial defense system toward oxidative stress COG2265 Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family COG4405 Protein conserved in bacteria COG0031 Belongs to the cysteine synthase cystathionine beta- synthase family COG1609 Transcriptional regulator COG0376 Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity COG0846 NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form COG1440 protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity COG1447 Phosphotransferase system cellobiose-specific component IIA COG1455 protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity COG3394 polysaccharide catabolic process COG2188 Transcriptional regulator COG1917 Cupin 2, conserved barrel domain protein COG0160 Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family COG0456 acetyltransferase COG0147 Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia COG2137 regulation of response to DNA damage stimulus COG1988 membrane-bound metal-dependent COG0512 Glutamine amidotransferase of anthranilate synthase COG1194 a g-specific adenine glycosylase COG0436 Aminotransferase COG1028 Short-chain dehydrogenase reductase Sdr COG3557 Belongs to the UPF0374 family