locus-tag class description COG3636 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 COG3657 addiction module killer protein COG1192 Involved in chromosome partitioning 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 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 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 COG1011 Hydrolase COG2217 Heavy metal translocating P-type atpase COG2608 mercury ion transmembrane transporter 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) COG2199 diguanylate cyclase activity COG2200 EAL domain COG3287 FIST C domain COG0784 Response regulator, receiver COG0835 chemotaxis COG0784 Response regulator, receiver COG0835 chemotaxis COG1352 Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP COG3148 PFAM DTW domain containing protein COG3148 PFAM DTW domain containing protein COG1815 bacterial-type flagellum-dependent cell motility COG1749 Flagellar hook protein flgE COG4787 bacterial-type flagellum-dependent cell motility COG2063 Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation COG1706 bacterial-type flagellum-dependent cell motility COG1705 Flagellar rod assembly protein muramidase FlgJ COG3951 Flagellar rod assembly protein muramidase FlgJ COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG2190 (PTS) system 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 COG0031 Belongs to the cysteine synthase cystathionine beta- synthase family COG2981 High affinity, high specificity proton-dependent sulfate transporter, which mediates sulfate uptake. Provides the sulfur source for the cysteine synthesis pathway COG3115 cell septum assembly 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 COG0330 HflC and HflK could COG3118 belongs to the thioredoxin family COG0561 phosphatase activity COG0300 oxidoreductase activity COG1090 epimerase COG0622 Phosphoesterase COG2267 carboxylic ester hydrolase activity COG3710 Transcriptional regulator COG0326 Molecular chaperone. Has ATPase activity COG0563 adenylate kinase activity COG0276 Catalyzes the ferrous insertion into protoporphyrin IX COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG3104 oligopeptide transport COG0367 asparagine synthase COG1280 lysine exporter protein (LysE YggA) COG1226 (belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family) COG4651 solute:proton antiporter activity COG1846 Transcriptional regulator COG1940 carbohydrate kinase activity COG1820 Belongs to the metallo-dependent hydrolases superfamily. NagA family COG1820 Belongs to the metallo-dependent hydrolases superfamily. NagA family COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG2190 (PTS) system 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) COG0716 FMN binding COG0596 Alpha beta hydrolase COG3434 signal transduction protein containing EAL and modified HD-GYP domains COG3434 signal transduction protein containing EAL and modified HD-GYP domains COG3057 Negative regulator of replication initiation, which contributes to regulation of DNA replication and ensures that replication initiation occurs exactly once per chromosome per cell cycle. Binds to pairs of hemimethylated GATC sequences in the oriC region, thus preventing assembly of replication proteins and re- initiation at newly replicated origins. Repression is relieved when the region becomes fully methylated COG0033 Phosphoglucomutase COG2964 Protein conserved in bacteria COG2964 Protein conserved in bacteria COG0251 oxidation-reduction process COG0446 pyridine nucleotide-disulphide oxidoreductase COG0327 Belongs to the GTP cyclohydrolase I type 2 NIF3 family COG2009 succinate dehydrogenase COG0640 Transcriptional regulator COG0640 Transcriptional regulator COG2142 Succinate dehydrogenase hydrophobic membrane anchor COG1053 succinate dehydrogenase COG0567 Dehydrogenase, E1 component COG0508 dehydrogenase complex catalyzes the overall conversion of COG0045 succinate-CoA ligase (ADP-forming) activity COG1108 ABC-type Mn2 Zn2 transport systems permease components COG1121 (ABC) transporter COG4531 ABC-type Zn2 transport system, periplasmic component surface adhesin COG0592 DNA-directed DNA polymerase activity COG0057 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity COG1918 ferrous iron import across plasma membrane COG0018 arginyl-trna synthetase COG3102 Protein conserved in bacteria COG0788 formyltetrahydrofolate deformylase activity COG1199 ATP-dependent helicase activity COG1214 PFAM Peptidase M22, glycoprotease COG0596 Alpha beta hydrolase COG0318 PFAM AMP-dependent synthetase and ligase COG0349 Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides COG0851 Prevents the cell division inhibition by proteins MinC and MinD at internal division sites while permitting inhibition at polar sites. This ensures cell division at the proper site by restricting the formation of a division septum at the midpoint of the long axis of the cell COG2894 cell division COG0850 regulation of cytokinetic process COG3100 YcgL domain-containing protein COG2951 lytic endotransglycosylase activity COG1972 Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family COG1972 Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family COG1972 Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family COG0745 RESPONSE REGULATOR receiver COG5002 protein histidine kinase activity COG1028 Short-chain dehydrogenase reductase Sdr COG0304 beta-ketoacyl-acyl-carrier-protein synthase II activity COG2986 histidine ammonia-lyase COG1216 Glycosyl transferase, family 2 COG1020 D-alanine [D-alanyl carrier protein] ligase activity COG0236 Carrier of the growing fatty acid chain in fatty acid biosynthesis COG0236 Carrier of the growing fatty acid chain in fatty acid biosynthesis COG0397 Uncharacterized ACR, YdiU/UPF0061 family COG1175 transmembrane transport COG3842 ATPase activity COG1638 TRAP-type C4-dicarboxylate transport system periplasmic component COG3090 Trap-type c4-dicarboxylate transport system, small permease component COG1593 TRAP-type C4-dicarboxylate transport system, large permease component COG2204 response regulator COG2204 response regulator COG4191 Histidine kinase COG4191 Histidine kinase COG0544 peptidyl-prolyl cis-trans isomerase 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 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 COG0776 regulation of translation 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 COG1555 photosystem II stabilization COG0232 Belongs to the dGTPase family. Type 2 subfamily COG1896 Catalyzes the strictly specific dephosphorylation of 2'- deoxyribonucleoside 5'-monophosphates COG0436 Aminotransferase COG1169 isochorismate synthase COG1165 Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate (SEPHCHC) COG0447 Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA) COG0318 PFAM AMP-dependent synthetase and ligase COG2855 membrane COG2095 MarC family integral membrane protein COG0845 Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family COG0841 Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family COG0841 Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family COG0031 Belongs to the cysteine synthase cystathionine beta- synthase family COG1522 sequence-specific DNA binding 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 COG1946 Acyl-CoA thioesterase COG3126 Type III secretion system lipoprotein chaperone (YscW) COG0742 ribosomal rna small subunit methyltransferase COG0057 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity 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 COG3139 Protein of unknown function (DUF1315) COG0252 asparaginase activity COG0552 protein localization to endoplasmic reticulum COG0616 signal peptide processing COG0446 pyridine nucleotide-disulphide oxidoreductase COG1902 pentaerythritol trinitrate reductase activity COG0778 Nitroreductase 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 COG0123 including yeast histone deacetylase and acetoin utilization protein COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG1502 Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol COG2731 YhcH YjgK YiaL family protein COG2884 Cell division ATP-binding protein ftsE COG0168 Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA COG0569 domain protein COG3083 sulfuric ester hydrolase activity COG3082 Protein of unknown function (DUF1414) COG3081 Nucleoid-associated protein COG1757 Na H antiporter COG2177 Part of the ABC transporter FtsEX involved in COG0136 Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate COG0664 - Catabolite gene activator and regulatory subunit of cAMP-dependent protein COG2095 MarC family integral membrane protein COG1012 belongs to the aldehyde dehydrogenase family COG1454 alcohol dehydrogenase COG1028 Short-chain dehydrogenase reductase Sdr COG1028 Short-chain dehydrogenase reductase Sdr COG0278 Belongs to the glutaredoxin family. Monothiol subfamily COG2056 Na+-H+ antiporter family 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 COG2885 chlorophyll binding COG0346 lactoylglutathione lyase activity 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 COG4660 Part of a membrane complex involved in electron transport COG4659 FMN binding COG4658 electron transport chain COG4656 Part of a membrane complex involved in electron transport COG2878 Part of a membrane complex involved in electron transport COG4657 Part of a membrane complex involved in electron transport COG0556 nucleotide-excision repair COG2204 response regulator COG2198 Histidine kinase COG0391 Required for morphogenesis under gluconeogenic growth conditions COG2896 Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate COG0521 Mo-molybdopterin cofactor biosynthetic process 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 COG0315 cyclic pyranopterin monophosphate synthase activity COG1977 Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin COG0314 molybdopterin synthase activity COG0601 transmembrane transport COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG0444 Belongs to the ABC transporter superfamily COG0435 Glutathione S-transferase COG2350 Protein conserved in bacteria COG1301 dicarboxylic acid transport COG0159 tryptophan synthase activity COG0133 tryptophan synthase activity COG0134 indole-3-glycerol-phosphate synthase activity COG0135 phosphoribosylanthranilate isomerase activity COG0547 Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA) COG1580 Controls the rotational direction of flagella during chemotaxis COG0512 Glutamine amidotransferase of anthranilate synthase 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 COG0613 PHP domain protein COG0009 L-threonylcarbamoyladenylate synthase COG3099 Belongs to the UPF0263 family 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 COG0187 DNA topoisomerase II activity COG3161 chorismate lyase activity COG5001 Diguanylate cyclase COG0417 DNA replication proofreading COG2197 response regulator COG0322 excinuclease ABC activity 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 COG0208 Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides COG0209 Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides COG2937 Belongs to the GPAT DAPAT family COG2227 3-demethylubiquinone-9 3-O-methyltransferase activity COG3303 Catalyzes the reduction of nitrite to ammonia, consuming six electrons in the process COG3303 Catalyzes the reduction of nitrite to ammonia, consuming six electrons in the process COG0437 4 iron, 4 sulfur cluster binding COG3301 Polysulphide reductase, NrfD COG1138 Cytochrome C-type biogenesis protein 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 COG3088 subunit of a heme lyase COG4235 cytochrome complex assembly 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 COG0489 protein tyrosine kinase activity COG0572 uridine kinase COG2109 Required for both de novo synthesis of the corrin ring for the assimilation of exogenous corrinoids. Participates in the adenosylation of a variety of incomplete and complete corrinoids COG0394 Belongs to the low molecular weight phosphotyrosine protein phosphatase family COG0659 secondary active sulfate transmembrane transporter activity COG1530 ribonuclease E activity COG0424 maF-like protein COG1399 metal-binding, possibly nucleic acid-binding protein COG0333 Belongs to the bacterial ribosomal protein bL32 family COG0416 fatty acid biosynthetic process 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 COG1249 Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family COG0236 Carrier of the growing fatty acid chain in fatty acid biosynthesis COG1559 Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation COG0125 Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis COG0084 hydrolase, TatD family' COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG0733 neurotransmitter:sodium symporter activity COG4667 esterase of the alpha-beta hydrolase superfamily COG4667 esterase of the alpha-beta hydrolase superfamily COG0469 pyruvate kinase activity COG1940 carbohydrate kinase activity COG0784 Response regulator, receiver COG0835 chemotaxis COG0784 Response regulator, receiver COG0835 chemotaxis COG0587 DNA-directed DNA polymerase activity COG1028 Short-chain dehydrogenase reductase Sdr COG0616 signal peptide processing COG0283 belongs to the cytidylate kinase family. Type 1 subfamily COG0539 negative regulation of cytoplasmic translation COG0776 regulation of translation COG3771 Involved in the assembly of lipopolysaccharide (LPS) COG2956 Modulates cellular lipopolysaccharide (LPS) levels by regulating LpxC, which is involved in lipid A biosynthesis. May act by modulating the proteolytic activity of FtsH towards LpxC. May also coordinate assembly of proteins involved in LPS synthesis at the plasma membrane COG0284 orotidine-5'-phosphate decarboxylase activity COG4174 ABC transporter (Permease) COG4174 ABC transporter (Permease) COG4239 (ABC) transporter, permease COG4239 (ABC) transporter, permease COG4166 transmembrane transport COG0444 Belongs to the ABC transporter superfamily COG0444 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG4608 Belongs to the ABC transporter superfamily COG2265 Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family COG0583 DNA-binding transcription factor activity COG0686 Belongs to the AlaDH PNT family 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) COG2256 atpase related to the helicase subunit of the holliday junction resolvase 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) COG0071 Belongs to the small heat shock protein (HSP20) family COG0502 Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism COG0156 8-amino-7-oxononanoate synthase 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 COG0501 Belongs to the peptidase M48B family COG0300 oxidoreductase activity COG2230 cyclopropane-fatty-acyl-phospholipid synthase COG0015 Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily COG2915 High frequency lysogenization protein hflD homolog COG0482 sulfurtransferase 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 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 COG2916 Histone family protein nucleoid-structuring protein H-NS COG1757 Na H antiporter 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 COG0141 Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine COG0079 Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily COG0131 Imidazoleglycerol-phosphate dehydratase COG0241 D,D-heptose 1,7-bisphosphate phosphatase 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 COG0106 1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase COG0107 imidazoleglycerol-phosphate synthase activity COG0139 Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP COG0140 phosphoribosyl-ATP diphosphatase activity COG3012 SEC-C Motif Domain Protein COG3012 SEC-C Motif Domain Protein COG2908 Hydrolyzes the pyrophosphate bond of UDP-2,3- diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate (lipid X) and UMP by catalyzing the attack of water at the alpha-P atom. Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell COG0652 PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides COG0215 cysteine-tRNA ligase activity COG1435 thymidine kinase activity COG0451 ADP-glyceromanno-heptose 6-epimerase activity COG0583 DNA-binding transcription factor activity COG2116 formate transmembrane transporter activity COG2116 formate transmembrane transporter activity COG0789 Transcriptional regulator COG0789 Transcriptional regulator COG0390 transport system, permease component COG3005 denitrification pathway COG3005 denitrification pathway COG0243 molybdopterin cofactor binding COG1227 inorganic diphosphatase activity COG4172 Belongs to the ABC transporter superfamily COG1221 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain COG1842 Phage shock protein A COG1566 PFAM secretion protein HlyD family protein COG1566 PFAM secretion protein HlyD family protein COG1983 PspC domain protein COG2818 Glycosylase COG0626 cystathionine gamma-synthase activity COG0733 neurotransmitter:sodium symporter activity COG0564 pseudouridine synthase 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 COG1151 hydroxylamine reductase activity COG3604 Transcriptional regulator COG0558 Belongs to the CDP-alcohol phosphatidyltransferase class-I family COG4136 ATPase activity COG4135 transport system, permease component COG4134 Bacterial extracellular solute-binding protein COG3313 Fe-S protein COG1825 This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance COG2205 protein histidine kinase activity COG2205 protein histidine kinase activity COG2205 protein histidine kinase activity COG1061 Type III restriction enzyme res subunit COG2814 Major facilitator Superfamily COG0702 epimerase COG1136 (ABC) transporter COG3004 Na( ) H( ) antiporter that extrudes sodium in exchange for external protons COG3007 enoyl-[acyl-carrier-protein] reductase (NADH) activity COG2985 domain, Protein COG3273 potassium ion transport COG0695 Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins COG1979 alcohol dehydrogenase COG1737 Transcriptional regulator COG0076 glutamate decarboxylase activity COG2431 L-lysine efflux transmembrane transporter activity COG3070 regulator of competence-specific genes COG5002 protein histidine kinase activity COG5002 protein histidine kinase activity COG1932 Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine COG4987 ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC COG4988 ABC transporter COG0492 ferredoxin-NADP+ reductase activity COG0471 metal ion transport COG0471 metal ion transport COG0471 metal ion transport COG2949 membrane COG0281 malic enzyme COG1643 Atp-dependent helicase COG1643 Atp-dependent helicase COG0152 phosphoribosylaminoimidazolesuccinocarboxamide synthase activity COG1346 cytolysis COG1380 Effector of murein hydrolase LrgA COG2925 Exonuclease COG2038 nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity 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 COG2988 succinylglutamate desuccinylase activity COG4139 cobalamin transport COG4138 Part of the ABC transporter complex BtuCDF involved in vitamin B12 import. Responsible for energy coupling to the transport system COG1451 nucleotide metabolic process COG3129 Specifically methylates the adenine in position 1618 of 23S rRNA COG3063 Type IV pilus biogenesis stability protein PilW COG1897 L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine COG2195 Cleaves the N-terminal amino acid of tripeptides COG3508 Involved in the catabolism of homogentisate (2,5- dihydroxyphenylacetate or 2,5-OH-PhAc), a central intermediate in the degradation of phenylalanine and tyrosine. Catalyzes the oxidative ring cleavage of the aromatic ring of homogentisate to yield maleylacetoacetate COG0625 glutathione transferase activity COG0625 glutathione transferase activity COG1278 Cold shock COG1278 Cold shock COG1278 Cold shock COG0376 Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity COG0584 glycerophosphoryl diester phosphodiesterase COG0584 glycerophosphoryl diester phosphodiesterase COG1349 DNA-binding transcription factor activity COG1349 DNA-binding transcription factor activity COG3842 ATPase activity COG0395 ABC-type sugar transport system, permease component COG1175 transmembrane transport COG1653 transport COG0730 response to heat COG0730 response to heat COG2197 response regulator COG2206 PFAM metal-dependent phosphohydrolase, HD sub domain COG2513 Catalyzes the thermodynamically favored C-C bond cleavage of (2R,3S)-2-methylisocitrate to yield pyruvate and succinate COG0372 Belongs to the citrate synthase family COG2828 Protein conserved in bacteria COG0561 phosphatase activity COG3335 DDE superfamily endonuclease COG3335 DDE superfamily endonuclease COG3335 DDE superfamily endonuclease COG3335 DDE superfamily endonuclease COG0602 queuosine metabolic process COG0603 Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0)) COG3706 GGDEF domain COG3706 GGDEF domain COG1092 Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG1254 Belongs to the acylphosphatase family COG2920 part of a sulfur-relay system COG0670 Belongs to the BI1 family COG1126 abc transporter atp-binding protein COG0765 amino acid transport COG4597 amino acid ABC transporter COG0834 ABC-type amino acid transport signal transduction systems periplasmic component domain COG0437 4 iron, 4 sulfur cluster binding COG0348 domain, Protein COG0204 Acyl-transferase COG0204 Acyl-transferase COG0346 lactoylglutathione lyase activity COG0346 lactoylglutathione lyase activity COG1846 Transcriptional regulator COG3971 2-oxopent-4-enoate hydratase activity COG3384 dioxygenase COG1012 belongs to the aldehyde dehydrogenase family COG1960 acyl-CoA dehydrogenase activity COG2317 Broad specificity carboxypetidase that releases amino acids sequentially from the C-terminus, including neutral, aromatic, polar and basic residues COG1115 amino acid carrier protein COG0371 Dehydrogenase COG0845 Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family COG3290 protein histidine kinase activity COG3290 protein histidine kinase activity COG4565 transcriptional regulatory protein COG0364 Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone COG0363 glucosamine-6-phosphate deaminase activity COG0362 Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH COG4932 domain protein COG5492 domain, Protein COG2148 undecaprenyl-phosphate glucose phosphotransferase activity COG0438 transferase activity, transferring glycosyl groups COG3977 Valine--pyruvate aminotransferase COG2204 response regulator COG1366 Belongs to the anti-sigma-factor antagonist family COG1793 dna ligase COG3706 GGDEF domain COG3706 GGDEF domain COG3706 GGDEF domain COG3706 GGDEF domain COG1666 GTP binding COG0722 Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP) COG2996 Protein conserved in bacteria COG0144 Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA COG3270 Specifically methylates the cytosine at position 1407 (m5C1407) of 16S rRNA COG3008 intermembrane lipid transfer COG2995 paraquat-inducible protein a COG1132 (ABC) transporter COG1956 GAF domain-containing protein COG3109 RNA chaperone with significant RNA binding, RNA strand exchange and RNA duplexing activities COG0226 Part of the ABC transporter complex PstSACB involved in phosphate import COG0308 aminopeptidase N COG2902 Dehydrogenase COG0167 dihydroorotate dehydrogenase activity COG0116 Belongs to the methyltransferase superfamily COG1092 Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA COG0488 (ABC) transporter COG0764 3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity COG1067 ATP-dependent peptidase activity COG1067 ATP-dependent peptidase activity COG3120 sequence-specific DNA binding COG3278 Belongs to the heme-copper respiratory oxidase family COG2010 Cytochrome c COG2217 Heavy metal translocating P-type atpase COG4206 TonB-dependent receptor COG0664 - Catabolite gene activator and regulatory subunit of cAMP-dependent protein COG0589 response to stress COG0037 tRNA processing COG2992 FlgJ-related protein COG3842 ATPase activity COG1176 ABC-type spermidine putrescine transport system, permease component I COG1177 transmembrane transport COG0687 Required for the activity of the bacterial periplasmic transport system of putrescine 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 COG0004 ammonium transporteR COG0004 ammonium transporteR COG0796 Provides the (R)-glutamate required for cell wall biosynthesis COG0437 4 iron, 4 sulfur cluster binding COG0243 molybdopterin cofactor binding COG3383 formate dehydrogenase (NAD+) activity 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 COG0488 (ABC) transporter COG3852 Histidine kinase COG2204 response regulator COG4662 Binding-protein-dependent transport system inner membrane component COG3842 ATPase activity COG0746 molybdenum cofactor guanylyltransferase activity COG1940 carbohydrate kinase activity COG0840 transmembrane signaling receptor activity COG3290 protein histidine kinase activity COG0791 NLP P60 protein COG3706 GGDEF domain COG0307 riboflavin synthase, alpha COG0534 Mate efflux family protein 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 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 COG2801 Transposase and inactivated derivatives COG0582 viral genome integration into host DNA COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG4115 mRNA cleavage COG0751 glycine-tRNA ligase activity COG0625 glutathione transferase activity COG1322 Protein conserved in bacteria COG2226 methyltransferase COG0661 Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis COG0454 -acetyltransferase COG0454 -acetyltransferase 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 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 COG0706 membrane insertase activity COG0752 glycyl-tRNA synthetase alpha subunit COG0805 protein transport COG4628 conserved protein (DUF2132) COG0084 hydrolase, TatD family' COG0291 Belongs to the bacterial ribosomal protein bL35 family 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) COG4326 sporulation control protein COG4326 sporulation control protein COG1228 amidohydrolase COG0010 Belongs to the arginase family COG2987 Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate COG2986 histidine ammonia-lyase COG5640 endopeptidase activity COG2020 methyltransferase activity COG0247 lactate metabolic process COG0277 FAD linked oxidase domain protein 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 COG2885 chlorophyll binding COG2885 chlorophyll binding COG0295 cytidine deaminase activity COG0027 Involved in the de novo purine biosynthesis. Catalyzes the transfer of formate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR). Formate is provided by PurU via hydrolysis of 10-formyl-tetrahydrofolate COG0500 methyltransferase COG0776 regulation of translation COG0218 Necessary for normal cell division and for the maintenance of normal septation COG1488 Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP 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 COG1166 arginine decarboxylase activity COG0010 Belongs to the arginase family COG2814 Major facilitator Superfamily COG2814 Major facilitator Superfamily COG5380 lipid catabolic process COG1075 acetyltransferases and hydrolases with the alpha beta hydrolase fold COG1643 Atp-dependent helicase 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 COG3078 GTPase activator activity COG2894 cell division COG4964 Belongs to the GSP D family COG4964 Belongs to the GSP D family COG4964 Belongs to the GSP D family COG3713 MltA-interacting MipA family protein COG2119 membrane COG0443 Heat shock 70 kDa protein COG0443 Heat shock 70 kDa protein COG2165 general secretion pathway protein COG2165 general secretion pathway protein COG2165 general secretion pathway protein COG0297 glycogen (starch) synthase activity COG0438 transferase activity, transferring glycosyl groups COG0438 transferase activity, transferring glycosyl groups COG3300 MHYT domain COG5001 Diguanylate cyclase COG3300 MHYT domain COG5001 Diguanylate cyclase COG1596 polysaccharide export COG1596 polysaccharide export COG1115 amino acid carrier protein COG1132 (ABC) transporter COG1132 (ABC) transporter COG0783 Belongs to the Dps family COG0814 amino acid COG1597 lipid kinase activity COG2206 PFAM metal-dependent phosphohydrolase, HD sub domain COG2206 PFAM metal-dependent phosphohydrolase, HD sub domain COG2206 PFAM metal-dependent phosphohydrolase, HD sub domain COG0583 DNA-binding transcription factor activity COG1180 Activation of pyruvate formate-lyase under anaerobic conditions by generation of an organic free radical, using S- adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine COG1328 CTP reductase activity COG2199 diguanylate cyclase activity COG2200 EAL domain COG3852 Histidine kinase COG0834 ABC-type amino acid transport signal transduction systems periplasmic component domain COG4191 Histidine kinase COG0834 ABC-type amino acid transport signal transduction systems periplasmic component domain COG4191 Histidine kinase COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG3283 Transcriptional regulator of aromatic amino acids metabolism COG3768 UPF0283 membrane protein COG3106 COG3106 Predicted ATPase 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 COG0494 nUDIX hydrolase COG0814 amino acid COG0814 amino acid COG1760 l-serine dehydratase COG2200 EAL domain COG0174 glutamine synthetase COG0720 synthase COG0017 Asparaginyl-tRNA synthetase COG1167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs COG2770 Histidine kinase COG3437 response regulator, receiver COG1448 Aminotransferase COG1217 gtp-binding protein TYPA COG0840 transmembrane signaling receptor activity COG1292 Belongs to the BCCT transporter (TC 2.A.15) family COG1846 Transcriptional regulator COG4663 Part of the tripartite ATP-independent periplasmic (TRAP) transport system COG4663 Part of the tripartite ATP-independent periplasmic (TRAP) transport system COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG3108 Peptidase M15 COG2989 Protein conserved in bacteria COG2186 Transcriptional regulator COG3067 Na( ) H( ) antiporter that extrudes sodium in exchange for external protons COG3012 SEC-C Motif Domain Protein COG3318 Belongs to the UPF0149 family COG1295 ribonuclease BN COG0366 Alpha amylase catalytic COG4120 Belongs to the binding-protein-dependent transport system permease family COG3092 negative regulation of chromosome organization COG0282 Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction COG0280 phosphate acetyltransferase COG0857 belongs to the CobB CobQ family COG0620 Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation COG0583 DNA-binding transcription factor activity COG1490 D-aminoacyl-tRNA deacylase activity COG1032 radical SAM domain protein COG0456 acetyltransferase COG2207 Transcriptional regulator COG0488 (ABC) transporter COG1866 Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA COG0861 Integral membrane protein TerC family COG1052 Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family COG1454 alcohol dehydrogenase COG1454 alcohol dehydrogenase COG0235 Class ii aldolase COG4154 Belongs to the RbsD FucU family 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 COG1070 Carbohydrate kinase COG2407 Converts the aldose L-fucose into the corresponding ketose L-fuculose COG0738 Major facilitator superfamily COG1349 DNA-binding transcription factor activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0546 phosphoglycolate phosphatase activity COG2320 Catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog)) COG0286 site-specific DNA-methyltransferase (adenine-specific) activity COG0610 Subunit R is required for both nuclease and ATPase activities, but not for modification COG0610 Subunit R is required for both nuclease and ATPase activities, but not for modification COG0286 site-specific DNA-methyltransferase (adenine-specific) activity 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 COG0425 Belongs to the sulfur carrier protein TusA family COG1609 Transcriptional regulator COG2207 Transcriptional regulator COG3031 protein transport across the cell outer membrane COG0015 Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily COG3069 C4-dicarboxylate transmembrane transporter activity COG2804 Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB COG1737 Transcriptional regulator COG2003 Belongs to the UPF0758 family COG0328 RNA-DNA hybrid ribonuclease activity COG0328 RNA-DNA hybrid ribonuclease activity COG1459 type II secretion system COG0582 viral genome integration into host DNA COG0582 viral genome integration into host DNA COG0582 viral genome integration into host DNA COG2165 general secretion pathway protein COG0754 glutathionylspermidine amidase activity COG3766 membrane COG0379 Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate COG1729 Mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division COG2885 chlorophyll binding COG0823 Involved in the tonB-independent uptake of proteins COG2165 general secretion pathway protein COG0811 peptide transport COG0824 Thioesterase COG1294 oxidase, subunit COG1271 oxidase subunit COG2255 four-way junction helicase activity COG0632 four-way junction helicase activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG2165 general secretion pathway protein COG0817 Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group 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) COG4106 trans-aconitate 2-methyltransferase activity COG0500 methyltransferase COG0189 ligase activity COG4067 protein conserved in archaea COG0189 ligase activity COG4067 protein conserved in archaea COG4795 General secretion pathway protein COG3096 Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division COG3095 Involved in chromosome condensation, segregation and cell cycle progression. May participate in facilitating chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division. Probably acts via its interaction with MukB and MukF COG3006 Involved in chromosome condensation, segregation and cell cycle progression. May participate in facilitating chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division. Not required for mini-F plasmid partitioning. Probably acts via its interaction with MukB and MukE. Overexpression results in anucleate cells. It has a calcium binding activity COG2227 3-demethylubiquinone-9 3-O-methyltransferase activity COG1434 Gram-negative-bacterium-type cell wall biogenesis COG0745 RESPONSE REGULATOR receiver COG3381 protein complex oligomerization COG1609 Transcriptional regulator COG3156 type II secretion system protein K COG3070 regulator of competence-specific genes COG0297 glycogen (starch) synthase activity COG0448 Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans 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 COG3297 Involved in a type II secretion system (T2SS, formerly general secretion pathway, GSP) for the export of proteins COG0128 3-phosphoshikimate 1-carboxyvinyltransferase activity COG2935 proteasome-mediated ubiquitin-dependent protein catabolic process 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 COG0542 response to heat COG2127 Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation COG1278 Cold shock COG3149 Involved in a type II secretion system (T2SS, formerly general secretion pathway, GSP) for the export of proteins COG3203 Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane COG1199 ATP-dependent helicase activity COG3923 Primosomal replication protein n COG0840 transmembrane signaling receptor activity COG0708 Exodeoxyribonuclease III COG1882 Formate acetyltransferase COG1218 3'(2'),5'-bisphosphate nucleotidase COG1180 Activation of pyruvate formate-lyase under anaerobic conditions by generation of an organic free radical, using S- adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine COG3013 Belongs to the UPF0304 family COG2766 serine protein kinase COG2718 Belongs to the UPF0229 family COG2719 SpoVR family COG2199 diguanylate cyclase activity COG1212 Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria COG2835 tetraacyldisaccharide 4'-kinase activity COG0494 nUDIX hydrolase COG1663 tetraacyldisaccharide 4'-kinase activity COG1132 (ABC) transporter COG0658 competence protein COG2333 competence protein COMEC COG4591 ABC-type transport system involved in lipoprotein release permease component COG1136 (ABC) transporter COG4591 ABC-type transport system involved in lipoprotein release permease component COG0316 Belongs to the HesB IscA family 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 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 COG1252 NADH dehydrogenase COG0537 adenosine 5'-monophosphoramidase activity COG1040 competence protein COG0517 IMP dehydrogenase activity COG0617 tRNA 3'-terminal CCA addition COG0618 3'(2'),5'-bisphosphate nucleotidase activity COG3706 GGDEF domain COG1982 Orn Lys Arg decarboxylase major COG0531 amino acid COG3710 Transcriptional regulator COG2199 diguanylate cyclase activity COG2203 Gaf domain COG2199 diguanylate cyclase activity COG2203 Gaf domain COG2239 Acts as a magnesium transporter COG0190 Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate COG2226 methyltransferase COG1785 Belongs to the alkaline phosphatase family COG0596 Alpha beta hydrolase COG2983 Belongs to the UPF0260 family COG0580 Belongs to the MIP aquaporin (TC 1.A.8) family COG0745 RESPONSE REGULATOR receiver COG0745 RESPONSE REGULATOR receiver 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 COG0718 Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection COG0503 Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis COG0745 RESPONSE REGULATOR receiver COG0583 DNA-binding transcription factor activity COG0034 Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine COG1286 toxin biosynthetic process COG3147 Non-essential cell division protein that could be required for efficient cell constriction COG0285 dihydrofolate synthase activity 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 COG0101 tRNA pseudouridine synthase activity COG0136 Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate COG0111 D-isomer specific 2-hydroxyacid dehydrogenase COG0304 beta-ketoacyl-acyl-carrier-protein synthase II activity COG0665 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity COG4121 Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34 COG2183 response to ionizing radiation COG3101 peptidyl-lysine hydroxylation COG2860 membrane 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 COG2890 protein-(glutamine-N5) methyltransferase activity COG2840 Smr protein MutS2 COG2062 phosphohistidine phosphatase, SixA COG1025 Belongs to the peptidase M16 family COG1024 Enoyl-CoA hydratase COG1250 3-hydroxyacyl-CoA dehydrogenase COG0183 Belongs to the thiolase family 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 COG2067 long-chain fatty acid transport protein COG2067 long-chain fatty acid transport protein COG2067 long-chain fatty acid transport protein COG2067 long-chain fatty acid transport protein COG2853 Lipoprotein COG3088 subunit of a heme lyase COG4235 cytochrome complex assembly COG0526 COG0526, thiol-disulfide isomerase and thioredoxins COG1138 Cytochrome C-type biogenesis protein COG2332 Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH COG3114 Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes COG0755 Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes COG2386 Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes COG4133 protoheme IX ABC transporter activity COG0835 chemotaxis COG1192 Involved in chromosome partitioning COG2201 protein-glutamate methylesterase activity COG0643 Histidine kinase COG0784 Response regulator, receiver COG2198 Histidine kinase COG3143 Plays an important role in bacterial chemotaxis signal transduction pathway by accelerating the dephosphorylation of phosphorylated CheY (CheY-P) COG1684 flagellar biosynthetic protein fliR COG1987 bacterial-type flagellum assembly COG2233 PERMEase 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 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) COG1677 Flagellar hook-basal body complex protein FliE 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 COG0566 Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family COG1344 Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella COG2837 iron assimilation COG1393 Belongs to the ArsC 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 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 COG3317 Gram-negative-bacterium-type cell outer membrane assembly COG0329 Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA) COG2716 regulation of RNA biosynthetic process COG1225 Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen COG4783 chaperone-mediated protein folding COG1393 Belongs to the ArsC family COG0604 alcohol dehydrogenase COG1758 RNA polymerase activity COG2233 PERMEase COG0035 Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate 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 COG0121 glutamine amidotransferase COG1960 acyl-CoA dehydrogenase activity COG0194 GDP metabolic process COG2249 NAD(P)H dehydrogenase (quinone) activity COG0328 RNA-DNA hybrid ribonuclease activity COG2226 methyltransferase COG0491 Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid COG0741 lytic transglycosylase activity COG1388 LysM domain COG3021 interspecies interaction between organisms COG0347 Belongs to the P(II) protein family COG0037 tRNA processing COG0825 malonyl-CoA metabolic process COG0587 DNA-directed DNA polymerase activity COG0164 Endonuclease that specifically degrades the RNA of RNA- DNA hybrids COG0763 Condensation of UDP-2,3-diacylglucosamine and 2,3- diacylglucosamine-1-phosphate to form lipid A disaccharide, a precursor of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell COG1043 involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell COG0764 3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity COG1044 Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell COG2825 PFAM Outer membrane chaperone Skp (OmpH) COG4775 Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane COG0750 zinc metalloprotease COG0743 1-deoxy-D-xylulose-5-phosphate reductoisomerase activity COG0848 biopolymer transport protein COG0848 biopolymer transport protein COG0575 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 COG0024 Methionine aminopeptidase COG2844 Modifies, by uridylylation and deuridylylation, the PII regulatory proteins (GlnB and homologs), in response to the nitrogen status of the cell that GlnD senses through the glutamine level. Under low glutamine levels, catalyzes the conversion of the PII proteins and UTP to PII-UMP and PPi, while under higher glutamine levels, GlnD hydrolyzes PII-UMP to PII and UMP (deuridylylation). Thus, controls uridylylation state and activity of the PII proteins, and plays an important role in the regulation of nitrogen COG0811 peptide transport COG0811 peptide transport COG0811 peptide transport COG3098 single-species biofilm formation COG1671 Belongs to the UPF0178 family COG2978 secondary active p-aminobenzoyl-glutamate transmembrane transporter activity COG2978 secondary active p-aminobenzoyl-glutamate transmembrane transporter activity COG0254 rRNA binding COG1720 tRNA m6t6A37 methyltransferase activity COG0811 peptide transport COG0442 prolyl-tRNA aminoacylation COG0733 neurotransmitter:sodium symporter activity COG0514 ATP-dependent DNA helicase (RecQ) COG0514 ATP-dependent DNA helicase (RecQ) 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 COG1477 protein flavinylation COG2871 sodium ion transport COG2209 NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol COG1347 NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol COG2869 NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol COG1805 sodium ion transport COG1726 NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol COG4206 TonB-dependent receptor COG0271 Belongs to the BolA IbaG family COG2813 Specifically methylates the guanine in position COG2211 Major facilitator Superfamily COG1595 DNA-templated transcription, initiation COG1893 Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid COG0693 protein deglycase 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 COG2166 iron-sulfur cluster assembly COG1179 involved in molybdopterin and THIamine biosynthesis family 1 COG2821 murein-degrading enzyme. may play a role in recycling of muropeptides during cell elongation and or cell division COG0183 Belongs to the thiolase family 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 COG1074 ATP-dependent DNA helicase activity COG1330 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 recognizes the wild- type Chi sequence, and when added to isolated RecB increases its ATP-dependent helicase processivity COG3083 sulfuric ester hydrolase activity COG3083 sulfuric ester hydrolase activity COG3141 response to X-ray COG0747 negative chemotaxis COG2171 N-acyltransferase activity 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 COG0189 ligase activity COG0569 domain protein COG0073 Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation COG2017 converts alpha-aldose to the beta-anomer COG0153 Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P) COG1085 galactose-1-phosphate uridylyltransferase COG1087 Belongs to the NAD(P)-dependent epimerase dehydratase family COG1609 Transcriptional regulator COG3250 beta-galactosidase activity COG2731 YhcH YjgK YiaL family protein COG0531 amino acid COG0531 amino acid COG1626 Provides the cells with the ability to utilize trehalose at high osmolarity by splitting it into glucose molecules that can subsequently be taken up by the phosphotransferase-mediated uptake system COG3408 Glycogen debranching enzyme COG0583 DNA-binding transcription factor activity COG2059 Chromate COG1022 Amp-dependent synthetase and ligase 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 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 COG0560 Phosphoserine phosphatase COG0813 purine-nucleoside phosphorylase activity COG1015 Phosphotransfer between the C1 and C5 carbon atoms of pentose COG0213 The enzymes which catalyze the reversible phosphorolysis of pyrimidine nucleosides are involved in the degradation of these compounds and in their utilization as carbon and energy sources, or in the rescue of pyrimidine bases for nucleotide synthesis COG0274 Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate COG0084 hydrolase, TatD family' COG4108 Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP COG3706 GGDEF domain COG3706 GGDEF domain COG0456 acetyltransferase COG3153 acetyltransferase COG3154 lipid carrier protein COG0826 peptidase U32 COG0826 peptidase U32 COG0534 Mate efflux family protein COG1185 polyribonucleotide nucleotidyltransferase activity COG0184 Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome 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 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 COG0195 Participates in both transcription termination and antitermination COG0779 Required for maturation of 30S ribosomal subunits COG1024 Enoyl-CoA hydratase COG1250 3-hydroxyacyl-CoA dehydrogenase COG1314 P-P-bond-hydrolysis-driven protein transmembrane transporter activity COG1109 Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate 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 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 COG0293 Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit COG1534 Rna-binding protein COG2027 D-alanyl-D-alanine carboxypeptidase COG2832 Protein of unknown function (DUF454) 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) COG0739 heme binding COG0739 heme binding COG0316 Belongs to the HesB IscA family COG0001 glutamate-1-semialdehyde 2,1-aminomutase activity COG0628 permease COG2813 Specifically methylates the guanine in position COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG0601 transmembrane transport COG0601 transmembrane transport COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG0444 Belongs to the ABC transporter superfamily COG0444 Belongs to the ABC transporter superfamily COG2971 BadF BadG BcrA BcrD COG1109 Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate COG1109 Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate COG1840 ABC-type Fe3 transport system, periplasmic component COG0347 Belongs to the P(II) protein family COG3112 Uncharacterised protein family (UPF0231) COG3835 regulator COG2610 gluconate transmembrane transporter activity COG1929 Belongs to the glycerate kinase type-1 family COG1049 propionate catabolic process, 2-methylcitrate cycle COG1752 Esterase of the alpha-beta hydrolase superfamily COG0744 Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors COG1489 DNA binding 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 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) COG0801 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase COG0801 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase COG0413 3-methyl-2-oxobutanoate hydroxymethyltransferase activity COG0414 Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate COG0842 Transport permease protein COG1131 (ABC) transporter COG0659 secondary active sulfate transmembrane transporter activity COG0288 reversible hydration of carbon dioxide COG1249 Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family COG0508 dehydrogenase complex catalyzes the overall conversion of COG2609 component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2) COG2186 Transcriptional regulator COG3023 N-Acetylmuramoyl-L-alanine amidase COG2804 Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB COG1459 type II secretion system COG0237 dephospho-CoA kinase activity COG3024 Inhibits all the catalytic activities of DNA gyrase by preventing its interaction with DNA. Acts by binding directly to the C-terminal domain of GyrB, which probably disrupts DNA binding by the gyrase 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 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 COG4137 Cytochrome C assembly protein COG4536 flavin adenine dinucleotide binding COG1854 S-ribosylhomocysteine lyase activity COG2918 glutathione biosynthetic process COG0612 Peptidase, M16 COG1238 metal cluster binding COG1883 Na -transporting methylmalonyl-CoA oxaloacetate decarboxylase, beta subunit COG0511 ligase activity, forming carbon-carbon bonds COG5016 pyruvate COG3630 sodium ion export across plasma membrane COG1739 Uncharacterized protein family UPF0029 COG1551 Could accelerate the degradation of some genes transcripts potentially through selective RNA binding COG0527 aspartate kinase activity 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 COG2137 regulation of response to DNA damage stimulus 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 COG0249 that it carries out the mismatch recognition step. This protein has a weak ATPase activity COG0568 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released COG2856 Zn peptidase COG1388 LysM domain COG4942 peptidase COG2518 Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins COG0496 Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates COG0585 pseudouridine synthase activity COG0245 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity COG1211 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity COG2919 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 COG0148 phosphopyruvate hydratase activity COG0504 CTP synthase activity COG3956 TIGRFAM MazG family protein 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 COG2265 Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family COG2205 protein histidine kinase activity COG3437 response regulator, receiver COG3850 Histidine kinase COG4999 Histidine kinase COG0736 holo-[acyl-carrier-protein] synthase activity COG0854 Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate COG1381 Involved in DNA repair and RecF pathway recombination 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 COG0571 ribonuclease III activity COG0481 GTPase activity COG3086 response to oxidative stress COG1595 DNA-templated transcription, initiation COG0029 Catalyzes the oxidation of L-aspartate to iminoaspartate COG2938 An FAD assembly protein, which accelerates covalent attachment of the cofactor into other proteins. Plays an essential role in the assembly of succinate dehydrogenase (SDH, respiratory complex II), an enzyme complex that is a component of both the tricarboxylic acid cycle and the electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol. Required for flavinylation (covalent attachment of FAD) of the flavoprotein subunit SdhA of SDH COG0354 folic acid binding COG0654 COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases COG0654 COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases COG3079 Belongs to the UPF0149 family 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 COG0212 Belongs to the 5-formyltetrahydrofolate cyclo-ligase family COG0120 Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate COG0111 D-isomer specific 2-hydroxyacid dehydrogenase COG0583 DNA-binding transcription factor activity COG1279 arginine transmembrane transporter activity COG0668 transmembrane transport COG0191 fructose-bisphosphate aldolase activity COG0126 phosphoglycerate kinase activity COG1561 YicC-like family, N-terminal region COG0057 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity 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 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 COG3091 SprT-like family COG2356 endonuclease I COG1385 rRNA (uridine-N3-)-methyltransferase activity COG0189 ligase activity COG1678 Uncharacterized ACR, COG1678 COG0816 Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA COG0325 Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis COG0345 Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline COG0762 integral membrane protein COG1872 DUF167 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 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 COG0635 Involved in the biosynthesis of porphyrin-containing compound COG2066 Belongs to the glutaminase family COG0220 tRNA (guanine-N7-)-methyltransferase activity COG2924 Could be a mediator in iron transactions between iron acquisition and iron-requiring processes, such as synthesis and or repair of Fe-S clusters in biosynthetic enzymes COG0594 ribonuclease P activity COG0168 Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA COG0461 Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP) COG3437 response regulator, receiver COG3437 response regulator, receiver COG3437 response regulator, receiver COG1560 Kdo2-lipid A biosynthetic process COG1609 Transcriptional regulator COG3394 polysaccharide catabolic process COG1486 melibiose metabolic process COG1486 melibiose metabolic process COG1447 Phosphotransferase system cellobiose-specific component IIA COG1440 protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity COG0726 polysaccharide deacetylase COG1309 transcriptional regulator COG0795 lipopolysaccharide-transporting ATPase activity COG0795 lipopolysaccharide-transporting ATPase activity COG0260 Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides COG2927 DNA polymerase III (CHI subunit) COG0525 valine-tRNA ligase activity COG4269 membrane COG0456 acetyltransferase 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 COG2235 arginine 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 COG0540 Belongs to the ATCase OTCase family COG1781 'de novo' pyrimidine nucleobase biosynthetic process COG0251 oxidation-reduction process COG1052 Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family COG1052 Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family 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 COG1875 ATPase related to phosphate starvation-inducible protein PhoH COG0312 modulator of DNA gyrase COG0388 Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source COG3164 Protein of unknown function COG0424 maF-like protein 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 COG2003 Belongs to the UPF0758 family COG1077 Cell shape determining protein MreB Mrl COG1459 type II secretion system COG0227 Belongs to the bacterial ribosomal protein bL28 family COG2804 Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB COG3267 Type II secretory pathway component ExeA COG3409 Peptidoglycan-binding domain 1 protein COG3267 Type II secretory pathway component ExeA COG3409 Peptidoglycan-binding domain 1 protein COG2199 diguanylate cyclase activity COG2200 EAL domain COG0267 Belongs to the bacterial ribosomal protein bL33 family 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 COG0075 2-aminoethylphosphonate-pyruvate transaminase activity COG0527 aspartate kinase activity COG0646 methionine synthase COG1410 methionine synthase COG0175 sulfate reduction COG0155 Belongs to the nitrite and sulfite reductase 4Fe-4S domain family 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 COG0735 belongs to the Fur family COG0166 Belongs to the GPI family COG0432 Pfam Uncharacterised protein family UPF0047 COG0266 class I DNA-(apurinic or apyrimidinic site) endonuclease activity COG0787 Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids COG0359 binds to the 23S rRNA COG2965 DNA replication, synthesis of RNA primer COG0360 Binds together with S18 to 16S ribosomal RNA COG0036 Belongs to the ribulose-phosphate 3-epimerase family COG0338 D12 class N6 adenine-specific DNA methyltransferase COG0337 Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ) COG0703 Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate COG5009 serine-type D-Ala-D-Ala carboxypeptidase activity COG0165 Argininosuccinate lyase COG1246 Belongs to the acetyltransferase family. ArgA subfamily COG0137 argininosuccinate synthase activity COG0548 Belongs to the acetylglutamate kinase family. ArgB subfamily COG0002 Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde 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 COG2352 Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle COG0685 methylenetetrahydrofolate reductase (NAD(P)H) activity COG0669 Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate COG0460 homoserine dehydrogenase COG0527 aspartate kinase activity COG0626 cystathionine gamma-synthase activity COG3060 This regulatory protein, when combined with SAM (S- adenosylmethionine) represses the expression of the methionine regulon and of enzymes involved in SAM synthesis COG0281 malic enzyme COG0254 rRNA binding 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 COG1609 Transcriptional regulator COG5405 Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery 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 COG0859 PFAM glycosyl transferase family 9 COG1575 Belongs to the MenA family. Type 1 subfamily 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 COG3074 FtsZ-dependent cytokinesis COG1494 fructose-1,6-bisphosphatase COG0149 triose-phosphate isomerase activity COG0463 Glycosyl transferase, family 2 COG1087 Belongs to the NAD(P)-dependent epimerase dehydratase family COG1087 Belongs to the NAD(P)-dependent epimerase dehydratase family COG2906 2 iron, 2 sulfur cluster binding 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 COG0049 tRNA binding 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 COG2168 tRNA wobble position uridine thiolation COG2923 Belongs to the DsrF TusC family COG1553 Part of a sulfur-relay system required for 2-thiolation of 5-methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. Accepts sulfur from TusA and transfers it in turn to TusE COG0859 PFAM glycosyl transferase family 9 COG0545 Peptidyl-prolyl cis-trans isomerase COG2900 Belongs to the SlyX family COG1047 Peptidyl-prolyl cis-trans COG2249 NAD(P)H dehydrogenase (quinone) activity COG0488 (ABC) transporter COG0818 Recycling of diacylglycerol produced during the turnover of membrane phospholipid COG0818 Recycling of diacylglycerol produced during the turnover of membrane phospholipid COG0429 hydrolase of the alpha beta-hydrolase fold COG3089 Belongs to the UPF0270 family COG3954 Phosphoribulokinase COG0664 - Catabolite gene activator and regulatory subunit of cAMP-dependent protein COG1012 belongs to the aldehyde dehydrogenase family COG4992 N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity COG3642 lipopolysaccharide core region biosynthetic process COG0180 Tryptophanyl-tRNA synthetase COG0546 phosphoglycolate phosphatase activity COG0566 Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family COG0557 exoribonuclease II activity COG0402 S-adenosylhomocysteine deaminase activity 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 COG0790 COG0790 FOG TPR repeat, SEL1 subfamily 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 COG3242 Uncharacterized protein conserved in bacteria (DUF2065) COG0330 HflC and HflK could COG0330 HflC and HflK could 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) 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 COG0860 N-Acetylmuramoyl-L-alanine amidase COG0802 atpase or kinase COG1600 Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr) COG1949 3'-to-5' exoribonuclease specific for small oligoribonucleotides COG1162 GTPase activity COG0688 phosphatidylethanolamine metabolic process COG0696 Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate 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 COG1952 One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA COG0240 glycerol-3-phosphate dehydrogenase [NAD(P)+] activity COG1045 serine acetyltransferase COG4942 peptidase COG3385 transposase activity COG2269 With EpmB is involved in the beta-lysylation step of the post-translational modification of translation elongation factor P (EF-P). Catalyzes the ATP-dependent activation of (R)-beta-lysine produced by EpmB, forming a lysyl-adenylate, from which the beta- lysyl moiety is then transferred to the epsilon-amino group of a conserved specific lysine residue in EF-P COG1053 succinate dehydrogenase COG0479 Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family COG3029 Seems to be involved in the anchoring of the catalytic components of the fumarate reductase complex to the cytoplasmic membrane COG3080 Seems to be involved in the anchoring of the catalytic components of the fumarate reductase complex to the cytoplasmic membrane 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 COG1509 lysine 2,3-aminomutase activity COG1285 pathogenesis COG0459 protein refolding COG0234 Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter COG0534 Mate efflux family protein COG0205 6-phosphofructokinase activity COG3678 ATP-independent chaperone mediated protein folding COG0745 RESPONSE REGULATOR receiver COG2205 protein histidine kinase activity COG2205 protein histidine kinase activity COG0219 Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S- adenosyl-L-methionine to the 2'-OH of the wobble nucleotide COG1027 Aspartate ammonia-lyase COG2704 Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane COG4232 protein-disulfide reductase activity COG0399 UDP-4-amino-4-deoxy-L-arabinose aminotransferase COG2095 MarC family integral membrane protein COG4147 Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family COG0784 Response regulator, receiver COG2198 Histidine kinase COG2205 protein histidine kinase activity COG0784 Response regulator, receiver COG2198 Histidine kinase COG2205 protein histidine kinase activity COG2814 Major facilitator Superfamily 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 COG0757 Catalyzes a trans-dehydration via an enolate intermediate COG0511 ligase activity, forming carbon-carbon bonds COG0439 Biotin carboxylase COG2264 protein methyltransferase activity COG2901 Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters COG0789 Transcriptional regulator COG1835 transferase activity, transferring acyl groups other than amino-acyl groups COG2755 lipolytic protein G-D-S-L family COG0138 bifunctional purine biosynthesis protein purh COG0151 Belongs to the GarS family COG1253 flavin adenine dinucleotide binding COG3068 Protein conserved in bacteria COG1573 uracil-dna glycosylase COG0407 Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III COG3160 Binds RpoD and negatively regulates RpoD-mediated transcription activation by preventing the interaction between the primary sigma factor RpoD with the catalytic core of the RNA polymerase and with promoter DNA. May be involved in replacement of the RNA polymerase sigma subunit from RpoD to RpoS during the transition from exponential growth to the stationary phase COG0086 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates COG0085 RNA polymerase activity COG0222 ribosome binding COG0244 Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors COG0081 regulation of translation COG0080 Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors COG0690 P-P-bond-hydrolysis-driven protein transmembrane transporter activity COG0050 This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis COG0399 UDP-4-amino-4-deoxy-L-arabinose aminotransferase COG1072 (Pantothenic acid kinase)) 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 COG0812 UDP-N-acetylmuramate dehydrogenase activity COG1502 Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol COG0381 UDP-N-acetylglucosamine 2-epimerase activity COG0043 3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity COG2089 acid synthase COG3118 belongs to the thioredoxin family COG0513 Belongs to the DEAD box helicase family COG0248 Ppx GppA phosphatase COG1738 Involved in the import of queuosine (Q) precursors, required for Q precursor salvage COG2962 Rard protein COG1280 lysine exporter protein (LysE YggA) COG1280 lysine exporter protein (LysE YggA) COG0110 maltose O-acetyltransferase activity COG0110 maltose O-acetyltransferase activity COG0110 maltose O-acetyltransferase activity COG0210 DNA helicase COG3220 belongs to the UPF0276 family COG0006 proline dipeptidase activity COG0006 proline dipeptidase activity COG2022 thiamine diphosphate biosynthetic process COG0476 Involved in molybdopterin and thiamine biosynthesis, family 2 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 COG0239 Important for reducing fluoride concentration in the cell, thus reducing its toxicity COG2132 Multicopper oxidase COG0673 inositol 2-dehydrogenase activity COG0663 COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily 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) COG1083 cytidylyl-transferase COG0408 coproporphyrinogen oxidase activity COG0009 L-threonylcarbamoyladenylate synthase 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) COG0551 DNA topoisomerase type I activity COG2922 Belongs to the Smg family COG0758 DNA mediated transformation COG0242 peptide deformylase activity COG1028 Short-chain dehydrogenase reductase Sdr 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 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 COG0569 domain protein COG0168 Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA COG1272 protein, Hemolysin III COG3084 Protein conserved in bacteria 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 COG1651 Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process COG1651 Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process COG0204 Acyl-transferase COG0606 chelatase, subunit chli COG3978 acetolactate synthase activity COG0115 Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family COG0129 dihydroxy-acid dehydratase activity COG0583 DNA-binding transcription factor activity COG2814 Major facilitator Superfamily COG0765 amino acid transport 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 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) COG0356 it plays a direct role in the translocation of protons across the membrane COG3312 ion transport COG1475 DNA binding COG1192 Involved in chromosome partitioning COG0357 Ribosomal RNA small subunit methyltransferase G COG0445 tRNA wobble uridine modification COG1519 Transferase COG0859 PFAM glycosyl transferase family 9 COG1560 Kdo2-lipid A biosynthetic process COG0451 ADP-glyceromanno-heptose 6-epimerase activity COG4775 Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane COG0489 protein tyrosine kinase activity COG3206 protein involved in exopolysaccharide biosynthesis COG0381 UDP-N-acetylglucosamine 2-epimerase activity COG0677 UDP-N-acetyl-D-mannosamine dehydrogenase activity COG0438 transferase activity, transferring glycosyl groups COG1089 Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose COG0451 ADP-glyceromanno-heptose 6-epimerase activity COG1051 belongs to the nudix hydrolase family COG2148 undecaprenyl-phosphate glucose phosphotransferase activity COG0399 UDP-4-amino-4-deoxy-L-arabinose aminotransferase COG1004 Belongs to the UDP-glucose GDP-mannose dehydrogenase family COG4584 PFAM Integrase catalytic COG4584 PFAM Integrase catalytic COG1484 DNA-dependent DNA replication COG1236 Exonuclease of the beta-lactamase fold involved in RNA processing COG0230 Belongs to the bacterial ribosomal protein bL34 family 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 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 COG0088 Forms part of the polypeptide exit tunnel COG0089 rRNA binding 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 COG0185 Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA COG0092 Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation COG2960 long-chain fatty acid transporting porin activity COG0197 Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs COG0255 Belongs to the universal ribosomal protein uL29 family COG0186 One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA COG0093 Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome COG0198 One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit 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 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 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 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 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 COG0098 Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body COG1841 ribosomal large subunit assembly COG0200 Binds to the 23S rRNA COG0201 protein transport 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 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 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 COG0202 RNA polymerase activity COG0203 ribosomal protein L17 COG0845 Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family COG0545 Peptidyl-prolyl cis-trans isomerase COG3061 Opacity-associated protein A COG3266 domain, Protein COG2153 protein acetylation COG0737 Belongs to the 5'-nucleotidase family 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 COG1309 transcriptional regulator COG0175 sulfate reduction COG2895 sulfate adenylyltransferase (ATP) activity COG0471 metal ion transport COG3273 potassium ion transport COG0529 Catalyzes the synthesis of activated sulfate COG0577 efflux transmembrane transporter activity COG1136 (ABC) transporter COG3054 Bacterial protein of unknown function (YtfJ_HI0045) COG0729 surface antigen COG2911 Protein conserved in bacteria COG2105 PFAM AIG2 family protein COG0221 Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions COG0158 D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1 COG0773 UDP-N-acetylmuramate-L-alanine ligase activity COG0163 prenyltransferase activity COG4143 (ABC) transporter COG1178 ABC-type Fe3 transport system permease component COG3840 Part of the ABC transporter complex ThiBPQ involved in thiamine import. Responsible for energy coupling to the transport system COG3028 Belongs to the UPF0307 family COG0312 modulator of DNA gyrase COG2239 Acts as a magnesium transporter COG2239 Acts as a magnesium transporter COG1925 phosphoenolpyruvate-dependent sugar phosphotransferase system COG1660 Displays ATPase and GTPase activities COG1762 phosphoenolpyruvate-dependent sugar phosphotransferase system COG1544 Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase COG1137 ATPase activity COG1934 Involved in the assembly of lipopolysaccharide (LPS). Required for the translocation of LPS from the inner membrane to the outer membrane. May form a bridge between the inner membrane and the outer membrane, via interactions with LptC and LptD, thereby facilitating LPS transfer across the periplasm COG1778 Involved in the biosynthesis of lipopolysaccharides (LPSs). Catalyzes the hydrolysis of 3-deoxy-D-manno-octulosonate 8-phosphate (KDO 8-P) to 3-deoxy-D-manno-octulosonate (KDO) and inorganic phosphate COG0517 IMP dehydrogenase activity COG0794 Belongs to the SIS family. GutQ KpsF subfamily COG1127 ABC transporter COG0767 ABC-type transport system involved in resistance to organic solvents, permease component COG1463 ABC-type transport system involved in resistance to organic solvents, periplasmic component COG2854 intermembrane phospholipid transfer COG5007 Belongs to the BolA IbaG family COG0766 Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine COG0589 response to stress COG2358 TRAP transporter, solute receptor (TAXI family COG1438 arginine binding COG0039 L-malate dehydrogenase activity COG0142 geranyltranstransferase activity COG0261 This protein binds to 23S rRNA in the presence of protein L20 COG1126 abc transporter atp-binding protein COG0211 Belongs to the bacterial ribosomal protein bL27 family 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 COG2966 Psort location CytoplasmicMembrane, score COG3610 response to peptide COG0639 Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP COG2967 ApaG domain COG0030 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase 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) 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 COG1452 involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane COG1076 Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA COG0066 3-isopropylmalate dehydratase activity 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) COG1022 Amp-dependent synthetase and ligase COG0028 Belongs to the TPP enzyme family COG0440 acetolactate synthase activity COG3706 GGDEF domain COG4172 Belongs to the ABC transporter superfamily COG1349 DNA-binding transcription factor activity COG1349 DNA-binding transcription factor activity COG1349 DNA-binding transcription factor activity COG0449 glutamine-fructose-6-phosphate transaminase (isomerizing) activity COG3722 fumarate hydratase activity COG0246 Mannitol dehydrogenase COG2213 PTS system mannitol-specific COG4668 phosphoenolpyruvate-dependent sugar phosphotransferase system COG4166 transmembrane transport COG0328 RNA-DNA hybrid ribonuclease activity COG0601 transmembrane transport COG2003 Belongs to the UPF0758 family COG2003 Belongs to the UPF0758 family COG1349 DNA-binding transcription factor 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 COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG0738 Major facilitator superfamily COG3039 Transposase COG3444 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG3444 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG3715 PTS system COG3716 PTS system mannose fructose sorbose family IID component COG3716 PTS system mannose fructose sorbose family IID component COG2893 phosphoenolpyruvate-dependent sugar phosphotransferase system COG3444 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG4225 unsaturated rhamnogalacturonyl hydrolase activity COG4467 Involved in initiation control of chromosome replication COG1414 Transcriptional regulator COG1028 Short-chain dehydrogenase reductase Sdr COG1028 Short-chain dehydrogenase reductase Sdr 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 COG0800 Aldolase COG0800 Aldolase COG0800 Aldolase COG0800 Aldolase COG1610 YqeY-like protein COG0828 Belongs to the bacterial ribosomal protein bS21 family 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 COG0596 Alpha beta hydrolase COG0344 acyl-phosphate glycerol-3-phosphate acyltransferase activity COG1539 Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin COG1968 undecaprenyl-diphosphatase activity COG0617 tRNA 3'-terminal CCA addition COG4991 sh3 domain protein COG0306 phosphate transporter COG1392 Phosphate transport regulator COG3025 triphosphatase activity COG1226 (belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family) COG1391 [glutamine synthetase]-adenylyl-L-tyrosine phosphorylase COG0615 ADP-L-glycero-beta-D-manno-heptose biosynthetic process COG2870 Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose COG1538 Outer membrane efflux protein COG0494 nUDIX hydrolase COG3151 Protein conserved in bacteria COG3150 esterase COG0265 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain COG0265 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain COG3105 Protein conserved in bacteria COG1485 Reduces the stability of FtsZ polymers in the presence of ATP 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 COG0103 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) 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 COG2857 Cytochrome c1 COG0625 glutathione transferase activity COG2969 positive regulation of protein catabolic process COG2823 Periplasmic or secreted lipoprotein COG0279 D-glycero-D-manno-heptose 7-phosphate biosynthetic process COG0792 nuclease activity COG3107 peptidoglycan biosynthetic process COG0313 Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA COG0515 serine threonine protein kinase COG2815 serine threonine protein kinase COG0275 rRNA processing COG3116 cell division COG0768 penicillin binding 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 COG0770 UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity COG0472 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan COG0771 Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA) COG0772 Belongs to the SEDS family 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) COG0773 UDP-N-acetylmuramate-L-alanine ligase activity 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 COG0849 cell division 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 COG0774 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity COG0653 protein targeting COG0494 nUDIX hydrolase COG0289 4-hydroxy-tetrahydrodipicolinate reductase COG0505 Belongs to the CarA family COG0458 carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity COG0745 RESPONSE REGULATOR receiver COG0583 DNA-binding transcription factor activity COG2860 membrane COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component 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 COG1609 Transcriptional regulator COG0493 'glutamate synthase COG0067 glutamate synthase COG0069 glutamate synthase activity COG0070 glutamate synthase COG0067 glutamate synthase COG0069 glutamate synthase activity COG0070 glutamate synthase COG1242 4 iron, 4 sulfur cluster binding COG2203 Gaf domain COG3706 GGDEF domain COG4251 negative regulation of phosphorylation COG5001 Diguanylate cyclase COG2203 Gaf domain COG3706 GGDEF domain COG4251 negative regulation of phosphorylation COG5001 Diguanylate cyclase COG2203 Gaf domain COG3706 GGDEF domain COG4251 negative regulation of phosphorylation COG5001 Diguanylate cyclase COG2203 Gaf domain COG3706 GGDEF domain COG4251 negative regulation of phosphorylation COG5001 Diguanylate cyclase COG0784 Response regulator, receiver COG2198 Histidine kinase COG5002 protein histidine kinase activity COG0745 RESPONSE REGULATOR receiver 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 COG0083 homoserine kinase activity COG0498 Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine COG3445 Acts as a radical domain for damaged PFL and possibly other radical proteins 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 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 COG0129 dihydroxy-acid dehydratase activity COG1115 amino acid carrier protein COG3022 response to hydroperoxide COG0513 Belongs to the DEAD box helicase family COG0513 Belongs to the DEAD box helicase family COG4123 Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC) COG4974 Belongs to the 'phage' integrase family COG3265 gluconokinase activity COG1651 Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process COG0608 single-stranded DNA 5'-3' exodeoxyribonuclease activity COG1186 Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA COG1190 Belongs to the class-II aminoacyl-tRNA synthetase family COG0667 Aldo Keto reductase COG3066 DNA modification COG0494 nUDIX hydrolase COG0730 response to heat COG0682 Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins 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 COG1283 sodium-dependent phosphate transmembrane transporter activity COG1283 sodium-dependent phosphate transmembrane transporter activity COG0583 DNA-binding transcription factor activity COG0640 Transcriptional regulator COG0268 Binds directly to 16S ribosomal RNA COG0728 peptidoglycan biosynthetic process COG0196 riboflavin kinase activity 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) COG0597 This protein specifically catalyzes the removal of signal peptides from prolipoproteins COG1047 Peptidyl-prolyl cis-trans 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 COG3275 phosphorelay sensor kinase activity COG1966 Carbon starvation protein COG2377 Catalyzes the specific phosphorylation of 1,6-anhydro-N- acetylmuramic acid (anhMurNAc) with the simultaneous cleavage of the 1,6-anhydro ring, generating MurNAc-6-P. Is required for the utilization of anhMurNAc either imported from the medium or derived from its own cell wall murein, and thus plays a role in cell wall recycling COG0287 Prephenate dehydrogenase COG1605 Chorismate mutase COG0488 (ABC) transporter COG2973 This protein is an aporepressor. When complexed with L- tryptophan it binds the operator region of the trp operon (5'- ACTAGT-'3') and prevents the initiation of transcription. The complex also regulates trp repressor biosynthesis by binding to its regulatory region 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 COG0077 Prephenate dehydratase COG1605 Chorismate mutase COG1544 Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase COG4105 Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane COG0542 response to heat COG1249 Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family COG2961 Specifically methylates the adenine in position 2030 of 23S rRNA COG1145 4fe-4S ferredoxin, iron-sulfur binding domain protein COG0826 peptidase U32 COG2974 May be involved in recombination COG0745 RESPONSE REGULATOR receiver COG5002 protein histidine kinase activity COG0248 Ppx GppA phosphatase COG0855 Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP) COG0573 inorganic phosphate transmembrane transporter activity COG0581 inorganic phosphate transmembrane transporter activity COG1117 ATPase-coupled phosphate ion transmembrane transporter activity COG0704 Plays a role in the regulation of phosphate uptake COG3142 Participates in the control of copper homeostasis COG0450 alkyl hydroperoxide reductase COG0583 DNA-binding transcription factor activity 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 COG0517 IMP dehydrogenase 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 COG1522 sequence-specific DNA binding 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 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 COG0483 inositol monophosphate 1-phosphatase activity COG0565 Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA COG1959 2 iron, 2 sulfur cluster binding COG1104 cysteine desulfurase activity COG0822 iron-sulfur transferase activity COG0316 Belongs to the HesB IscA family COG5001 Diguanylate cyclase COG5002 protein histidine kinase activity COG5001 Diguanylate cyclase COG5002 protein histidine kinase activity COG1076 Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA COG0443 Heat shock 70 kDa protein COG0633 Ferredoxin COG2975 iron-sulfur cluster assembly COG0260 Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides COG0105 UTP biosynthetic process COG0820 rRNA (adenine-C2-)-methyltransferase activity COG0821 Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate COG0124 histidyl-tRNA synthetase COG0742 ribosomal rna small subunit methyltransferase COG2976 Protein conserved in bacteria COG1520 Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane COG1160 GTP binding COG2199 diguanylate cyclase activity COG2203 Gaf domain COG1570 exodeoxyribonuclease VII activity COG0516 GMP reductase activity COG0517 IMP dehydrogenase activity COG0518 GMP synthase (glutamine-hydrolyzing) activity COG0519 Catalyzes the synthesis of GMP from XMP COG1584 GPR1 FUN34 yaaH family protein COG1115 amino acid carrier protein COG0665 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity COG0583 DNA-binding transcription factor activity COG0009 L-threonylcarbamoyladenylate synthase COG0589 response to stress COG1528 Iron-storage protein COG0610 Subunit R is required for both nuclease and ATPase activities, but not for modification 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 COG2867 negative regulation of translational initiation COG2914 Belongs to the UPF0125 (RnfH) family COG2913 Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane COG0497 DNA recombination COG0497 DNA recombination 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 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 COG2081 HI0933 family COG0443 Heat shock 70 kDa protein COG0484 heat shock protein binding COG0627 Serine hydrolase involved in the detoxification of formaldehyde COG1062 S-(hydroxymethyl)glutathione dehydrogenase activity COG0583 DNA-binding transcription factor activity COG0583 DNA-binding transcription factor activity COG4623 carbon-oxygen lyase activity, acting on polysaccharides 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 COG0047 phosphoribosylformylglycinamidine synthase activity COG2959 enzyme of heme biosynthesis COG2195 Cleaves the N-terminal amino acid of tripeptides COG2252 PERMEase COG2252 PERMEase COG2236 Acts on guanine, xanthine and to a lesser extent hypoxanthine COG1073 alpha beta COG0263 Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate 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 COG1327 Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes 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 COG0054 6,7-dimethyl-8-ribityllumazine synthase activity 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 COG0611 Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1 COG1267 Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG) COG0181 hydroxymethylbilane synthase activity 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 COG1291 archaeal or bacterial-type flagellum-dependent cell motility COG0301 tRNA thio-modification 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 COG0583 DNA-binding transcription factor activity COG0583 DNA-binding transcription factor activity COG2363 Small membrane protein COG0258 In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity COG1611 Belongs to the LOG family COG0780 Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) COG2904 Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) COG3072 Adenylate cyclase COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310) 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 COG0241 D,D-heptose 1,7-bisphosphate phosphatase COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG0366 Alpha amylase catalytic COG1965 Belongs to the frataxin family 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 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 COG0321 lipoyl(octanoyl) transferase activity COG2921 Belongs to the UPF0250 family COG1686 Belongs to the peptidase S11 family COG1686 Belongs to the peptidase S11 family COG0797 Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides COG0772 Belongs to the SEDS family COG0768 penicillin binding COG1576 Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA COG0799 negative regulation of ribosome biogenesis COG1466 dna polymerase III delta subunit COG2980 Together with LptD, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane. Required for the proper assembly of LptD. Binds LPS and may serve as the LPS recognition site at the outer membrane COG0495 leucyl-tRNA aminoacylation COG2888 peptidyl-tyrosine sulfation COG0815 Transfers the fatty acyl group on membrane lipoproteins COG4535 Mg2 and Co2 transporter CorC 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 COG1702 phosphate starvation-inducible protein PhoH 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 COG0019 diaminopimelate decarboxylase activity COG0654 COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases 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 COG0193 aminoacyl-tRNA hydrolase activity 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) COG1947 Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol COG3017 Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein COG0373 Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA) COG0216 Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA COG2890 protein-(glutamine-N5) methyltransferase activity COG4973 Belongs to the 'phage' integrase family. XerC subfamily COG2912 Transglutaminase-like superfamily COG2877 3-deoxy-8-phosphooctulonate synthase activity COG2606 Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily COG1187 pseudouridine synthase activity COG2840 Smr protein MutS2 COG3735 TraB family COG4608 Belongs to the ABC transporter superfamily COG0444 Belongs to the ABC transporter superfamily COG0807 Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate COG3236 hydrolase activity, hydrolyzing N-glycosyl compounds COG0217 transcriptional regulatory protein COG0583 DNA-binding transcription factor activity COG1136 (ABC) transporter COG4591 ABC-type transport system involved in lipoprotein release permease component COG3275 phosphorelay sensor kinase activity COG0786 glutamate:sodium symporter activity COG0786 glutamate:sodium symporter activity COG0363 glucosamine-6-phosphate deaminase activity COG0189 ligase activity COG0122 3-methyladenine DNA glycosylase 8-oxoguanine DNA glycosylase 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 COG1284 Uncharacterised 5xTM membrane BCR, YitT family COG1284 COG1309 transcriptional regulator COG3123 guanosine phosphorylase activity COG1741 Belongs to the pirin family COG5001 Diguanylate cyclase COG1982 Orn Lys Arg decarboxylase major COG0531 amino acid COG2240 Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP COG3633 Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system) COG1162 GTPase activity COG2847 Copper chaperone PCu(A)C COG1999 signal sequence binding COG2909 trisaccharide binding COG0058 SHG alpha-glucan phosphorylase activity COG1640 4-alpha-glucanotransferase COG0296 Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position COG0840 transmembrane signaling receptor activity 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 COG2039 Removes 5-oxoproline from various penultimate amino acid residues except L-proline COG1012 belongs to the aldehyde dehydrogenase family COG0625 glutathione transferase activity COG0612 Peptidase, M16 COG1609 Transcriptional regulator COG1760 l-serine dehydratase COG0583 DNA-binding transcription factor activity COG0583 DNA-binding transcription factor activity COG0583 DNA-binding transcription factor activity COG0387 Pfam Sodium calcium exchanger COG0586 Pfam SNARE associated Golgi protein COG0642 Histidine kinase COG1028 Short-chain dehydrogenase reductase Sdr COG2199 diguanylate cyclase activity COG2199 diguanylate cyclase activity COG1609 Transcriptional regulator COG1609 Transcriptional regulator COG1609 Transcriptional regulator COG0395 ABC-type sugar transport system, permease component COG3842 ATPase activity COG1609 Transcriptional regulator COG0747 negative chemotaxis COG1173 ABC-type dipeptide oligopeptide nickel transport systems, permease components COG4580 involved in the transport of maltose and maltodextrins COG1472 Belongs to the glycosyl hydrolase 3 family COG0534 Mate efflux family protein COG0564 pseudouridine synthase activity COG1129 ABC transporter COG3250 beta-galactosidase activity COG2211 Major facilitator Superfamily COG0566 Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family COG1146 Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions COG2509 5-formyltetrahydrofolate cyclo-ligase activity COG1482 cell wall glycoprotein biosynthetic process COG1482 cell wall glycoprotein biosynthetic process 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 COG2207 Transcriptional regulator COG1445 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG1299 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG1299 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG3383 formate dehydrogenase (NAD+) activity COG0583 DNA-binding transcription factor activity COG0005 The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate COG0583 DNA-binding transcription factor activity COG0137 argininosuccinate synthase activity COG1301 dicarboxylic acid transport COG2265 Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family COG2175 clavaminate synthase activity COG1167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs COG2356 endonuclease I COG1368 sulfuric ester hydrolase activity COG2194 sulfuric ester hydrolase activity COG2194 sulfuric ester hydrolase activity COG4221 oxidoreductase activity COG0108 Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate COG0561 phosphatase activity COG0671 phosphoesterase, PA-phosphatase related COG0351 phosphomethylpyrimidine kinase COG2814 Major facilitator Superfamily COG0039 L-malate dehydrogenase activity COG0687 Required for the activity of the bacterial periplasmic transport system of putrescine COG4771 TonB-dependent receptor COG0393 Putative heavy-metal-binding COG1387 Histidinol phosphatase and related hydrolases of the PHP family COG0753 catalase activity COG0346 lactoylglutathione lyase activity COG2211 Major facilitator Superfamily COG3240 lipase activity COG1063 alcohol dehydrogenase COG2357 RelA SpoT domain protein COG3040 lipid binding COG3349 Catalyzes the conversion of zeta-carotene to lycopene via the intermediary of neurosporene. It carries out two consecutive desaturations (introduction of double bonds) at positions C-7 and C-7' COG2197 response regulator COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG3111 PFAM Bacterial OB fold (BOF) protein COG2274 protein secretion by the type I secretion system COG1538 Outer membrane efflux protein COG0668 transmembrane transport COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG0793 Belongs to the peptidase S41A family COG4946 Tricorn protease homolog COG1122 ATPase activity COG4720 Psort location CytoplasmicMembrane, score COG1566 PFAM secretion protein HlyD family protein COG0813 purine-nucleoside phosphorylase activity COG3272 Protein of unknown function (DUF1722) COG0789 Transcriptional regulator COG0415 Belongs to the DNA photolyase family COG1376 ErfK ybiS ycfS ynhG family protein COG1388 LysM domain COG0573 inorganic phosphate transmembrane transporter activity COG0581 inorganic phosphate transmembrane transporter activity COG1117 ATPase-coupled phosphate ion transmembrane transporter activity COG2304 oxidoreductase activity COG0714 Associated with various cellular activities COG0714 Associated with various cellular activities COG0489 protein tyrosine kinase activity COG3206 protein involved in exopolysaccharide biosynthesis COG1596 polysaccharide export COG2148 undecaprenyl-phosphate glucose phosphotransferase activity COG3842 ATPase activity COG1175 transmembrane transport COG3833 ABC-type maltose transport systems, permease component COG2354 Protein conserved in bacteria COG0418 dihydroorotase activity COG0633 Ferredoxin COG3217 Mosc domain protein beta barrel domain protein COG0633 Ferredoxin COG3217 Mosc domain protein beta barrel domain protein COG0171 NAD+ synthase (glutamine-hydrolyzing) activity COG4559 Part of the ABC transporter complex HmuTUV involved in hemin import. Responsible for energy coupling to the transport system COG0609 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG0848 biopolymer transport protein COG0811 peptide transport COG0810 Interacts with outer membrane receptor proteins that carry out high-affinity binding and energy dependent uptake into the periplasmic space of specific substrates. It could act to transduce energy from the cytoplasmic membrane to specific energy- requiring processes in the outer membrane, resulting in the release into the periplasm of ligands bound by these outer membrane proteins COG3721 Heme iron utilization protein COG0748 coenzyme F420 binding 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 COG0589 response to stress COG0366 Alpha amylase catalytic COG0366 Alpha amylase catalytic COG3314 Sporulation integral membrane protein YlbJ COG0739 heme binding 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 COG2084 Dehydrogenase COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG3706 GGDEF domain 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 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 COG1765 OsmC-like protein COG1011 Hydrolase COG1167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component COG2207 Transcriptional regulator COG0637 HAD-superfamily hydrolase subfamily IA, variant 3 COG0160 Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family COG0075 2-aminoethylphosphonate-pyruvate transaminase activity COG1840 ABC-type Fe3 transport system, periplasmic component COG3842 ATPase activity COG0665 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity COG0583 DNA-binding transcription factor activity COG3104 oligopeptide transport COG1760 l-serine dehydratase COG1309 transcriptional regulator COG1012 belongs to the aldehyde dehydrogenase family COG2303 Involved in the biosynthesis of the osmoprotectant glycine betaine. Catalyzes the oxidation of choline to betaine aldehyde and betaine aldehyde to glycine betaine at the same rate COG4175 Glycine betaine COG3059 membrane COG1806 Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the COG0578 Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family COG3075 Conversion of glycerol 3-phosphate to dihydroxyacetone. Uses fumarate or nitrate as electron acceptor COG0247 lactate metabolic process COG0546 phosphoglycolate phosphatase activity COG1619 proteins homologs of microcin C7 resistance protein MccF COG2133 pyrroloquinoline quinone binding COG0443 Heat shock 70 kDa protein 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 COG0841 Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family COG3174 membrane COG0639 Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP COG3397 chitin binding COG2962 Rard protein COG3097 Belongs to the UPF0267 family COG0671 phosphoesterase, PA-phosphatase related COG1288 antiporter activity COG2008 Catalyzes the cleavage of L-allo-threonine and L- threonine to glycine and acetaldehyde COG2425 protein containing a von Willebrand factor type A (vWA) domain COG2315 Protein conserved in bacteria COG1869 D-ribose catabolic process COG1129 ABC transporter COG1172 Belongs to the binding-protein-dependent transport system permease family COG1879 ABC-type sugar transport system periplasmic component 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 COG0456 acetyltransferase COG0456 acetyltransferase COG1366 Belongs to the anti-sigma-factor antagonist family COG2172 sigma factor antagonist activity COG0420 3'-5' exonuclease activity COG0419 ATPase involved in DNA repair COG0583 DNA-binding transcription factor activity COG0471 metal ion transport COG4606 Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily COG4605 iron ion homeostasis COG4604 ABC transporter, ATP-binding protein COG1289 transmembrane transporter activity COG0210 DNA helicase COG1803 Methylglyoxal synthase COG1879 ABC-type sugar transport system periplasmic component COG1262 PFAM Formylglycine-generating sulfatase enzyme COG3005 denitrification pathway COG0513 Belongs to the DEAD box helicase family COG1716 ATPase activity COG5001 Diguanylate cyclase COG1716 ATPase activity COG5001 Diguanylate cyclase COG0226 Part of the ABC transporter complex PstSACB involved in phosphate import COG4776 Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction COG0513 Belongs to the DEAD box helicase family COG0282 Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction COG3119 arylsulfatase activity COG3119 arylsulfatase activity COG0641 radical SAM COG0641 radical SAM COG0641 radical SAM COG0583 DNA-binding transcription factor activity COG0583 DNA-binding transcription factor activity COG1524 type I phosphodiesterase nucleotide pyrophosphatase COG2814 Major facilitator Superfamily COG0388 Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source COG1132 (ABC) transporter 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 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 COG0509 glycine decarboxylation via glycine cleavage system 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 COG1299 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG1445 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG3925 protein-phosphocysteine-D-fructose-phosphotransferase system transporter activity COG1105 Belongs to the carbohydrate kinase PfkB family COG1925 phosphoenolpyruvate-dependent sugar phosphotransferase system COG4668 phosphoenolpyruvate-dependent sugar phosphotransferase system COG1609 Transcriptional regulator COG0469 pyruvate kinase activity COG2271 Major facilitator Superfamily COG1979 alcohol dehydrogenase COG2207 Transcriptional regulator COG0448 Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans COG2759 Belongs to the formate--tetrahydrofolate ligase family COG0784 Response regulator, receiver COG3437 response regulator, receiver COG0784 Response regulator, receiver COG3437 response regulator, receiver COG0546 phosphoglycolate phosphatase activity COG0840 transmembrane signaling receptor activity COG0513 Belongs to the DEAD box helicase family COG0513 Belongs to the DEAD box helicase family COG0513 Belongs to the DEAD box helicase family COG0513 Belongs to the DEAD box helicase family COG0513 Belongs to the DEAD box helicase family COG3038 cytochrome b561 COG2353 YceI-like domain COG0583 DNA-binding transcription factor activity COG3593 DNA synthesis involved in DNA repair COG0737 Belongs to the 5'-nucleotidase family COG0861 Integral membrane protein TerC family COG2267 carboxylic ester hydrolase activity COG2050 protein possibly involved in aromatic compounds catabolism COG4533 DNA binding COG0366 Alpha amylase catalytic COG0583 DNA-binding transcription factor activity COG0484 heat shock protein binding COG3007 enoyl-[acyl-carrier-protein] reductase (NADH) activity COG4181 ATPase activity COG3127 ABC-type transport system involved in lysophospholipase L1, biosynthesis, permease component COG0665 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity COG4121 Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34 COG1984 allophanate hydrolase subunit 2 COG2049 5-oxoprolinase (ATP-hydrolyzing) activity COG1540 5-oxoprolinase (ATP-hydrolyzing) activity COG3447 MASE1 domain protein COG5001 Diguanylate cyclase COG5002 protein histidine kinase activity COG0583 DNA-binding transcription factor activity COG0045 succinate-CoA ligase (ADP-forming) activity COG1042 CoA-binding domain protein COG1670 COG1670 acetyltransferases, including N-acetylases of ribosomal proteins COG1181 Belongs to the D-alanine--D-alanine ligase family COG0023 Translation Initiation Factor COG3140 Belongs to the UPF0181 family COG0745 RESPONSE REGULATOR receiver COG1282 The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane COG3288 NAD(P)+ transhydrogenase (AB-specific) activity COG2199 diguanylate cyclase activity COG1846 Transcriptional regulator COG0697 spore germination COG4148 Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system COG4149 molybdate abc transporter COG0725 ABC transporter, periplasmic molybdate-binding protein COG1492 cobalamin metabolic process COG1403 HNH endonuclease COG2404 hydrolase activity, acting on ester bonds COG0602 queuosine metabolic process COG1328 CTP reductase 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 COG3118 belongs to the thioredoxin family COG0477 Major facilitator Superfamily COG0534 Mate efflux family protein COG2704 Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane COG1251 Belongs to the nitrite and sulfite reductase 4Fe-4S domain family COG1352 Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP COG0010 Belongs to the arginase family COG0523 cobalamin synthesis protein COG1251 Belongs to the nitrite and sulfite reductase 4Fe-4S domain family COG2146 nitrite reductase [NAD(P)H] activity 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 COG1116 anion transmembrane transporter activity COG3707 response 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 COG1648 precorrin-2 dehydrogenase activity COG0243 molybdopterin cofactor binding COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG0840 transmembrane signaling receptor activity COG2271 Major facilitator Superfamily COG0312 modulator of DNA gyrase COG0312 modulator of DNA gyrase COG3069 C4-dicarboxylate transmembrane transporter activity COG1704 LemA family COG0501 Belongs to the peptidase M48B family COG0631 protein serine/threonine phosphatase activity COG0515 serine threonine protein kinase COG2815 serine threonine protein kinase COG3530 Putative quorum-sensing-regulated virulence factor COG2154 pterin-4-alpha-carbinolamine dehydratase COG3186 Phenylalanine-4-hydroxylase 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 COG3155 Displays glyoxalase activity, catalyzing the conversion of glyoxal to glycolate COG1816 Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism COG1073 alpha beta COG2931 calcium- and calmodulin-responsive adenylate cyclase activity COG3064 Membrane COG2994 toxin metabolic process COG1028 Short-chain dehydrogenase reductase Sdr COG1024 Enoyl-CoA hydratase COG1024 Enoyl-CoA hydratase COG1960 acyl-CoA dehydrogenase activity COG1960 acyl-CoA dehydrogenase activity COG0183 Belongs to the thiolase family COG4799 Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta COG1309 transcriptional regulator COG2130 NADP-dependent COG2197 response regulator COG3851 Histidine kinase COG2271 Major facilitator Superfamily COG0545 Peptidyl-prolyl cis-trans isomerase COG0637 HAD-superfamily hydrolase subfamily IA, variant 3 COG2195 Cleaves the N-terminal amino acid of tripeptides COG4989 oxidoreductase activity COG0038 chloride channel COG1914 H( )-stimulated, divalent metal cation uptake system COG0302 gtp cyclohydrolase COG0303 'Molybdopterin COG0476 Involved in molybdopterin and thiamine biosynthesis, family 2 COG2897 thiosulfate sulfurtransferase activity COG0176 Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway 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 COG0840 transmembrane signaling receptor activity COG0722 Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP) COG0109 protoheme IX farnesyltransferase activity COG1612 heme a metabolic process COG3175 Exerts its effect at some terminal stage of cytochrome c oxidase synthesis, probably by being involved in the insertion of the copper B into subunit I 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 COG1846 Transcriptional regulator COG1764 response to oxidative stress COG0526 COG0526, thiol-disulfide isomerase and thioredoxins COG0697 spore germination COG0583 DNA-binding transcription factor activity COG0251 oxidation-reduction process COG4145 pantothenate transmembrane transporter activity COG3653 N-Acyl-D-aspartate D-glutamate deacylase COG0837 glucose binding COG1737 Transcriptional regulator COG1131 (ABC) transporter COG0842 Transport permease protein COG1846 Transcriptional regulator COG2514 catechol 2,3-dioxygenase activity COG3568 Endonuclease Exonuclease Phosphatase COG0044 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides 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 COG0516 GMP reductase activity COG0062 Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration COG0063 ADP-dependent NAD(P)H-hydrate dehydratase activity COG2197 response regulator COG3850 Histidine kinase COG1145 4fe-4S ferredoxin, iron-sulfur binding domain protein COG0243 molybdopterin cofactor binding COG3055 Converts alpha-N-acetylneuranimic acid (Neu5Ac) to the beta-anomer, accelerating the equilibrium between the alpha- and beta-anomers. Probably facilitates sialidase-negative bacteria to compete sucessfully for limited amounts of extracellular Neu5Ac, which is likely taken up in the beta-anomer. In addition, the rapid removal of sialic acid from solution might be advantageous to the bacterium to damp down host responses COG3055 Converts alpha-N-acetylneuranimic acid (Neu5Ac) to the beta-anomer, accelerating the equilibrium between the alpha- and beta-anomers. Probably facilitates sialidase-negative bacteria to compete sucessfully for limited amounts of extracellular Neu5Ac, which is likely taken up in the beta-anomer. In addition, the rapid removal of sialic acid from solution might be advantageous to the bacterium to damp down host responses COG1737 Transcriptional regulator COG0329 Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA) 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 COG3010 Converts N-acetylmannosamine-6-phosphate (ManNAc-6-P) to N-acetylglucosamine-6-phosphate (GlcNAc-6-P) COG1940 carbohydrate kinase activity COG0183 Belongs to the thiolase family 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 COG1879 ABC-type sugar transport system periplasmic component COG2827 Endonuclease containing a URI domain COG3132 Protein of unknown function, DUF480 COG2926 Belongs to the UPF0265 family COG0784 Response regulator, receiver COG2205 protein histidine kinase activity COG5002 protein histidine kinase activity 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 COG1522 sequence-specific DNA binding COG0531 amino acid COG0121 glutamine amidotransferase COG0745 RESPONSE REGULATOR receiver COG1457 Belongs to the purine-cytosine permease (2.A.39) family COG0402 S-adenosylhomocysteine deaminase activity COG4172 Belongs to the ABC transporter superfamily COG1505 serine-type exopeptidase activity COG1620 l-lactate permease COG1139 Iron-sulfur cluster binding protein COG2814 Major facilitator Superfamily COG1455 protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity COG3015 lipoprotein NlpE involved in copper resistance COG1126 abc transporter atp-binding protein COG0834 ABC-type amino acid transport signal transduction systems periplasmic component domain COG4215 (ABC) transporter COG4160 amino acid transport COG2755 lipolytic protein G-D-S-L family COG0834 ABC-type amino acid transport signal transduction systems periplasmic component domain COG2977 Belongs to the P-Pant transferase superfamily COG0722 Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP) COG1028 Short-chain dehydrogenase reductase Sdr COG1169 isochorismate synthase COG1021 2,3-dihydroxybenzoate-AMP ligase COG1021 2,3-dihydroxybenzoate-AMP ligase COG4607 ABC-type enterochelin transport system periplasmic component COG1629 transport COG4774 siderophore transport COG0189 ligase activity COG0189 ligase activity COG4067 protein conserved in archaea COG3696 Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family COG5000 phosphorelay sensor kinase activity COG5002 protein histidine kinase activity COG0745 RESPONSE REGULATOR receiver COG3033 Beta-eliminating lyase COG0814 amino acid COG0488 (ABC) transporter COG1609 Transcriptional regulator COG1762 phosphoenolpyruvate-dependent sugar phosphotransferase system COG0242 peptide deformylase activity COG1253 flavin adenine dinucleotide binding COG1012 belongs to the aldehyde dehydrogenase family COG3284 Transcriptional regulator COG1879 ABC-type sugar transport system periplasmic component COG0384 phenazine biosynthesis protein PhzF COG2197 response regulator 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) COG0673 inositol 2-dehydrogenase activity COG2015 COG2015, Alkyl sulfatase and related hydrolases COG2015 COG2015, Alkyl sulfatase and related hydrolases COG2015 COG2015, Alkyl sulfatase and related hydrolases COG0798 PFAM Bile acid sodium symporter COG0583 DNA-binding transcription factor activity 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 COG0700 Nucleoside recognition COG3366 ferrous iron transmembrane transporter activity COG0366 Alpha amylase catalytic COG0823 Involved in the tonB-independent uptake of proteins COG4147 Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family COG0591 Belongs to the sodium solute symporter (SSF) (TC 2.A.21) 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 COG0697 spore germination COG1929 Belongs to the glycerate kinase type-1 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 COG0383 alpha-mannosidase activity COG1299 protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity COG1917 Cupin 2, conserved barrel domain protein COG0388 Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source COG3153 acetyltransferase COG0668 transmembrane transport COG0494 nUDIX hydrolase COG1881 PFAM PEBP family protein COG2207 Transcriptional regulator COG3046 protein related to deoxyribodipyrimidine photolyase COG0454 -acetyltransferase 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 COG1342 Belongs to the UPF0251 family COG1858 cytochrome C peroxidase COG2814 Major facilitator Superfamily COG3110 Uncharacterized protein conserved in bacteria (DUF2057) 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 COG0583 DNA-binding transcription factor activity COG0111 D-isomer specific 2-hydroxyacid dehydrogenase COG1357 PFAM Pentapeptide repeats (8 copies) COG0579 oxidoreductase COG2204 response regulator COG2205 protein histidine kinase activity COG2176 DNA-directed DNA polymerase activity COG0577 efflux transmembrane transporter activity COG1136 (ABC) transporter COG0577 efflux transmembrane transporter activity COG1136 (ABC) transporter COG1120 ATPase activity COG0614 abc-type fe3 -hydroxamate transport system, periplasmic component COG2893 phosphoenolpyruvate-dependent sugar phosphotransferase system COG2222 sugar isomerase COG1349 DNA-binding transcription factor activity COG0697 spore germination COG2207 Transcriptional regulator 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 COG1518 maintenance of DNA repeat elements COG0695 Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins COG0583 DNA-binding transcription factor activity COG2258 MOSC domain COG4974 Belongs to the 'phage' integrase family COG2186 Transcriptional regulator COG3734 2-keto-3-deoxy-galactonokinase COG0800 Aldolase 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 COG4948 Mandelate Racemase Muconate Lactonizing COG0129 dihydroxy-acid dehydratase activity COG0329 Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA) COG1917 Cupin 2, conserved barrel domain protein COG2207 Transcriptional regulator COG1335 isochorismatase COG1609 Transcriptional regulator COG1168 Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities COG1312 Catalyzes the dehydration of D-mannonate COG2186 Transcriptional regulator COG3090 Trap-type c4-dicarboxylate transport system, small permease component COG0246 Mannitol dehydrogenase COG1904 glucuronate isomerase 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 COG2999 glutathione oxidoreductase activity COG1902 pentaerythritol trinitrate reductase activity COG0561 phosphatase activity COG0269 3-dehydro-L-gulonate-6-phosphate decarboxylase activity COG3623 hexulose-6-phosphate isomerase COG1132 (ABC) transporter COG5492 domain, Protein COG5492 domain, Protein COG5426 von Willebrand factor, type A COG1028 Short-chain dehydrogenase reductase Sdr COG0659 secondary active sulfate transmembrane transporter activity COG0747 negative chemotaxis COG3119 arylsulfatase activity COG3119 arylsulfatase activity COG3119 arylsulfatase activity COG0591 Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family COG0259 pyridoxamine-phosphate oxidase activity COG0459 protein refolding COG0234 Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter COG0110 maltose O-acetyltransferase 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 COG1737 Transcriptional regulator COG2103 Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate COG1263 PTS System COG1264 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity COG2199 diguanylate cyclase activity COG2200 EAL domain COG2203 Gaf domain COG0406 alpha-ribazole phosphatase activity 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 COG2201 protein-glutamate methylesterase activity COG1871 Probably deamidates glutamine residues to glutamate on methyl-accepting chemotaxis receptors (MCPs), playing an important role in chemotaxis COG1352 Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP COG0840 transmembrane signaling receptor activity COG0835 chemotaxis COG0745 RESPONSE REGULATOR receiver COG1444 tRNA N-acetyltransferase activity