locus-tag	class	description
CP_RS00005	COG0113	porphobilinogen synthase activity
CP_RS00010	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
CP_RS00020	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
CP_RS00020	COG1747	RNA polymerase binding
CP_RS00030	COG1448	Aminotransferase
CP_RS00040	COG1074	ATP-dependent DNA helicase activity
CP_RS00050	COG2814	Major facilitator Superfamily
CP_RS00055	COG0572	uridine kinase
CP_RS00060	COG1054	Belongs to the UPF0176 family
CP_RS00065	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
CP_RS00070	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
CP_RS00080	COG0728	peptidoglycan biosynthetic process
CP_RS00125	COG2877	3-deoxy-8-phosphooctulonate synthase activity
CP_RS00135	COG1837	Belongs to the UPF0109 family
CP_RS00140	COG0564	pseudouridine synthase activity
CP_RS00165	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
CP_RS00215	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
CP_RS00220	COG0515	serine threonine protein kinase
CP_RS00220	COG2815	serine threonine protein kinase
CP_RS00235	COG3869	Catalyzes the specific phosphorylation of arginine residues in
CP_RS00240	COG3880	PFAM UvrB UvrC protein
CP_RS00255	COG0233	cytoplasmic translational termination
CP_RS00260	COG0528	UMP kinase activity
CP_RS00265	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
CP_RS00270	COG0052	Belongs to the universal ribosomal protein uS2 family
CP_RS00295	COG0719	Fe-S assembly protein
CP_RS00300	COG0396	ATPase activity
CP_RS00305	COG0719	Fe-S assembly protein
CP_RS00310	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
CP_RS00340	COG1475	DNA binding
CP_RS00350	COG4608	Belongs to the ABC transporter superfamily
CP_RS00355	COG0444	Belongs to the ABC transporter superfamily
CP_RS00360	COG1392	Phosphate transport regulator
CP_RS00365	COG0306	phosphate transporter
CP_RS00370	COG0126	phosphoglycerate kinase activity
CP_RS00415	COG2172	sigma factor antagonist activity
CP_RS00435	COG0587	DNA-directed DNA polymerase activity
CP_RS00440	COG2271	Major facilitator Superfamily
CP_RS00450	COG0124	histidyl-tRNA synthetase
CP_RS00455	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)
CP_RS00460	COG0545	Peptidyl-prolyl cis-trans isomerase
CP_RS00465	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
CP_RS00470	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
CP_RS00495	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
CP_RS00500	COG1607	acyl-coa hydrolase
CP_RS00505	COG0815	Transfers the fatty acyl group on membrane lipoproteins
CP_RS00510	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
CP_RS00515	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
CP_RS00520	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
CP_RS00525	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
CP_RS00535	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
CP_RS00540	COG0088	Forms part of the polypeptide exit tunnel
CP_RS00545	COG0089	rRNA binding
CP_RS00550	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
CP_RS00555	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
CP_RS00560	COG0091	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
CP_RS00565	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
CP_RS00570	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
CP_RS00575	COG0255	Belongs to the universal ribosomal protein uL29 family
CP_RS00580	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
CP_RS00585	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
CP_RS00590	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
CP_RS00595	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
CP_RS00600	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
CP_RS00605	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
CP_RS00610	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
CP_RS00615	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
CP_RS00620	COG0200	Binds to the 23S rRNA
CP_RS00625	COG0201	protein transport
CP_RS00630	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
CP_RS00635	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
CP_RS00640	COG0202	RNA polymerase activity
CP_RS00645	COG0203	ribosomal protein L17
CP_RS00650	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
CP_RS00670	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
CP_RS00675	COG0632	four-way junction helicase activity
CP_RS00680	COG0105	UTP biosynthetic process
CP_RS00690	COG0445	tRNA wobble uridine modification
CP_RS00700	COG0305	Participates in initiation and elongation during chromosome replication
CP_RS00710	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
CP_RS00715	COG3202	ADP transmembrane transporter activity
CP_RS00720	COG0616	signal peptide processing
CP_RS00725	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
CP_RS00725	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
CP_RS00730	COG0237	dephospho-CoA kinase activity
CP_RS00735	COG1158	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template
CP_RS00745	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
CP_RS00750	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
CP_RS00760	COG0742	ribosomal rna small subunit methyltransferase
CP_RS00770	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
CP_RS00800	COG0601	transmembrane transport
CP_RS00805	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
CP_RS00820	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
CP_RS00820	COG0072	phenylalanine-tRNA ligase activity
CP_RS00825	COG1388	LysM domain
CP_RS00830	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
CP_RS00850	COG1381	Involved in DNA repair and RecF pathway recombination
CP_RS00870	COG2204	response regulator
CP_RS00880	COG4191	Histidine kinase
CP_RS00900	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
CP_RS00905	COG0101	tRNA pseudouridine synthase activity
CP_RS00910	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
CP_RS00915	COG1408	metallophosphoesterase
CP_RS00930	COG1247	-acetyltransferase
CP_RS00940	COG0217	transcriptional regulatory protein
CP_RS00950	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
CP_RS00955	COG0018	arginyl-trna synthetase
CP_RS00965	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
CP_RS00970	COG0575	Belongs to the CDS family
CP_RS00975	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
CP_RS00985	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
CP_RS00985	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
CP_RS00990	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
CP_RS00990	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
CP_RS01005	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)
CP_RS01020	COG1361	Conserved repeat domain
CP_RS01030	COG0793	Belongs to the peptidase S41A family
CP_RS01045	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
CP_RS01050	COG0049	tRNA binding
CP_RS01055	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
CP_RS01060	COG0051	transcription antitermination factor activity, RNA binding
CP_RS01065	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
CP_RS01070	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
CP_RS01080	COG0261	This protein binds to 23S rRNA in the presence of protein L20
CP_RS01085	COG0211	Belongs to the bacterial ribosomal protein bL27 family
CP_RS01090	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
CP_RS01095	COG1108	ABC-type Mn2 Zn2 transport systems permease components
CP_RS01100	COG1121	(ABC) transporter
CP_RS01105	COG0803	Belongs to the bacterial solute-binding protein 9 family
CP_RS01115	COG3210	domain, Protein
CP_RS01120	COG4625	pathogenesis
CP_RS01135	COG1115	amino acid carrier protein
CP_RS01140	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
CP_RS01145	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
CP_RS01150	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
CP_RS01155	COG0307	riboflavin synthase, alpha
CP_RS01160	COG0116	Belongs to the methyltransferase superfamily
CP_RS01160	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
CP_RS01165	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
CP_RS01170	COG1663	tetraacyldisaccharide 4'-kinase activity
CP_RS01175	COG1301	dicarboxylic acid transport
CP_RS01180	COG0508	dehydrogenase complex catalyzes the overall conversion of
CP_RS01185	COG0517	IMP dehydrogenase activity
CP_RS01185	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
CP_RS01215	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
CP_RS01220	COG0740	serine-type endopeptidase activity
CP_RS01225	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
CP_RS01245	COG2226	methyltransferase
CP_RS01255	COG1060	Radical SAM enzyme that catalyzes the addition of the adenosyl radical to the double bond of 3- (1- carboxyvinyl)oxy benzoate, leading to aminodeoxyfutalosine (AFL), a key intermediate in the formation of menaquinone (MK, vitamin K2) from chorismate
CP_RS01265	COG4692	amylo-alpha-1,6-glucosidase activity
CP_RS01270	COG1366	Belongs to the anti-sigma-factor antagonist family
CP_RS01280	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
CP_RS01300	COG2094	Belongs to the DNA glycosylase MPG family
CP_RS01305	COG0557	exoribonuclease II activity
CP_RS01310	COG0443	Heat shock 70 kDa protein
CP_RS01315	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
CP_RS01320	COG1420	regulation of RNA biosynthetic process
CP_RS01325	COG0442	prolyl-tRNA aminoacylation
CP_RS01340	COG1872	DUF167
CP_RS01350	COG0436	Aminotransferase
CP_RS01380	COG4286	Uncharacterised protein family (UPF0160)
CP_RS01385	COG0537	adenosine 5'-monophosphoramidase activity
CP_RS01405	COG1605	Chorismate mutase
CP_RS01405	COG2876	3-deoxy-7-phosphoheptulonate synthase activity
CP_RS01415	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
CP_RS01430	COG0321	lipoyl(octanoyl) transferase activity
CP_RS01430	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
CP_RS01435	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
CP_RS01440	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
CP_RS01450	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
CP_RS01470	COG3210	domain, Protein
CP_RS01475	COG3210	domain, Protein
CP_RS01480	COG3210	domain, Protein
CP_RS01485	COG3210	domain, Protein
CP_RS01490	COG3210	domain, Protein
CP_RS01495	COG3210	domain, Protein
CP_RS01555	COG3210	domain, Protein
CP_RS01560	COG3210	domain, Protein
CP_RS01565	COG4625	pathogenesis
CP_RS01570	COG3210	domain, Protein
CP_RS01575	COG3468	outer membrane autotransporter barrel domain protein
CP_RS01580	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
CP_RS01585	COG4625	pathogenesis
CP_RS01590	COG3468	outer membrane autotransporter barrel domain protein
CP_RS01595	COG3210	domain, Protein
CP_RS01605	COG3210	domain, Protein
CP_RS01635	COG0482	sulfurtransferase activity
CP_RS01640	COG0542	response to heat
CP_RS01660	COG0509	glycine decarboxylation via glycine cleavage system
CP_RS01675	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
CP_RS01680	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
CP_RS01685	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
CP_RS01690	COG1805	sodium ion transport
CP_RS01705	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
CP_RS01720	COG0275	rRNA processing
CP_RS01735	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
CP_RS01740	COG0860	N-Acetylmuramoyl-L-alanine amidase
CP_RS01750	COG0776	regulation of translation
CP_RS01760	COG0825	malonyl-CoA metabolic process
CP_RS01765	COG1132	(ABC) transporter
CP_RS01775	COG2107	Catalyzes the conversion of cyclic dehypoxanthine futalosine (cyclic DHFL) into 1,4-dihydroxy-6-naphthoate, a step in the biosynthesis of menaquinone (MK, vitamin K2)
CP_RS01805	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
CP_RS01820	COG0564	pseudouridine synthase activity
CP_RS01855	COG0631	protein serine/threonine phosphatase activity
CP_RS01870	COG4536	flavin adenine dinucleotide binding
CP_RS01880	COG0717	Belongs to the dCTP deaminase family
CP_RS01890	COG2255	four-way junction helicase activity
CP_RS01895	COG2385	sporulation resulting in formation of a cellular spore
CP_RS01910	COG0629	single-stranded DNA binding
CP_RS01915	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
CP_RS01930	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
CP_RS01940	COG0635	Involved in the biosynthesis of porphyrin-containing compound
CP_RS01955	COG0508	dehydrogenase complex catalyzes the overall conversion of
CP_RS01975	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
CP_RS02020	COG0633	Ferredoxin
CP_RS02030	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
CP_RS02035	COG1191	sigma factor activity
CP_RS02045	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)
CP_RS02050	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
CP_RS02055	COG0481	GTPase activity
CP_RS02095	COG3202	ADP transmembrane transporter activity
CP_RS02110	COG0803	Belongs to the bacterial solute-binding protein 9 family
CP_RS02115	COG1121	(ABC) transporter
CP_RS02120	COG1108	ABC-type Mn2 Zn2 transport systems permease components
CP_RS02120	COG1321	iron dependent repressor
CP_RS02125	COG1108	ABC-type Mn2 Zn2 transport systems permease components
CP_RS02130	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
CP_RS02135	COG0750	zinc metalloprotease
CP_RS02150	COG0592	DNA-directed DNA polymerase activity
CP_RS02155	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
CP_RS02160	COG1477	protein flavinylation
CP_RS02165	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
CP_RS02200	COG0043	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity
CP_RS02205	COG0227	Belongs to the bacterial ribosomal protein bL28 family
CP_RS02210	COG1640	4-alpha-glucanotransferase
CP_RS02225	COG4789	Type iii secretion
CP_RS02230	COG4792	protein secretion
CP_RS02235	COG0012	GTP binding
CP_RS02240	COG0196	riboflavin kinase activity
CP_RS02245	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
CP_RS02250	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
CP_RS02255	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
CP_RS02260	COG0195	Participates in both transcription termination and antitermination
CP_RS02265	COG0539	negative regulation of cytoplasmic translation
CP_RS02265	COG2183	response to ionizing radiation
CP_RS02270	COG0492	ferredoxin-NADP+ reductase activity
CP_RS02275	COG0736	holo-[acyl-carrier-protein] synthase activity
CP_RS02285	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
CP_RS02290	COG0706	membrane insertase activity
CP_RS02295	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
CP_RS02305	COG0058	SHG alpha-glucan phosphorylase activity
CP_RS02310	COG0508	dehydrogenase complex catalyzes the overall conversion of
CP_RS02315	COG0508	dehydrogenase complex catalyzes the overall conversion of
CP_RS02315	COG0022	dehydrogenase e1 component
CP_RS02330	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
CP_RS02335	COG2825	PFAM Outer membrane chaperone Skp (OmpH)
CP_RS02340	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
CP_RS02345	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
CP_RS02350	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
CP_RS02355	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
CP_RS02360	COG1028	Short-chain dehydrogenase reductase Sdr
CP_RS02365	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
CP_RS02390	COG0733	neurotransmitter:sodium symporter activity
CP_RS02395	COG1823	symporter activity
CP_RS02410	COG2239	Acts as a magnesium transporter
CP_RS02430	COG0531	amino acid
CP_RS02435	COG1830	Aldolase
CP_RS02440	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
CP_RS02445	COG2011	ABC-type metal ion transport system permease component
CP_RS02450	COG1464	Belongs to the NlpA lipoprotein family
CP_RS02465	COG0187	DNA topoisomerase II activity
CP_RS02470	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
CP_RS02475	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
CP_RS02490	COG0009	L-threonylcarbamoyladenylate synthase
CP_RS02515	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
CP_RS02520	COG0163	prenyltransferase activity
CP_RS02525	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
CP_RS02540	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
CP_RS02545	COG0037	tRNA processing
CP_RS02550	COG0653	protein targeting
CP_RS02600	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
CP_RS02605	COG0267	Belongs to the bacterial ribosomal protein bL33 family
CP_RS02610	COG4591	ABC-type transport system involved in lipoprotein release permease component
CP_RS02615	COG1136	(ABC) transporter
CP_RS02620	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
CP_RS02625	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
CP_RS02635	COG0563	adenylate kinase activity
CP_RS02660	COG0363	glucosamine-6-phosphate deaminase activity
CP_RS02665	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
CP_RS02670	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
CP_RS02675	COG0504	CTP synthase activity
CP_RS02680	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
CP_RS02710	COG1116	anion transmembrane transporter activity
CP_RS02730	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
CP_RS02770	COG0343	queuine tRNA-ribosyltransferase activity
CP_RS02825	COG0205	6-phosphofructokinase activity
CP_RS02830	COG0471	metal ion transport
CP_RS02835	COG3012	SEC-C Motif Domain Protein
CP_RS02860	COG0444	Belongs to the ABC transporter superfamily
CP_RS02865	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
CP_RS02870	COG0601	transmembrane transport
CP_RS02875	COG4166	transmembrane transport
CP_RS02880	COG0747	negative chemotaxis
CP_RS02885	COG4166	transmembrane transport
CP_RS02890	COG4166	transmembrane transport
CP_RS02895	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
CP_RS02900	COG1438	arginine binding
CP_RS02905	COG0765	amino acid transport
CP_RS02910	COG1126	abc transporter atp-binding protein
CP_RS02925	COG1295	ribonuclease BN
CP_RS02940	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
CP_RS02945	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
CP_RS02950	COG0511	ligase activity, forming carbon-carbon bonds
CP_RS02955	COG0439	Biotin carboxylase
CP_RS03005	COG0518	GMP synthase (glutamine-hydrolyzing) activity
CP_RS03005	COG0519	Catalyzes the synthesis of GMP from XMP
CP_RS03010	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
CP_RS03100	COG1519	Transferase
CP_RS03105	COG0495	leucyl-tRNA aminoacylation
CP_RS03125	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
CP_RS03130	COG1262	PFAM Formylglycine-generating sulfatase enzyme
CP_RS03130	COG0515	serine threonine protein kinase
CP_RS03150	COG0542	response to heat
CP_RS03155	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
CP_RS03165	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
CP_RS03175	COG1678	Uncharacterized ACR, COG1678
CP_RS03180	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
CP_RS03185	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
CP_RS03190	COG1164	Oligoendopeptidase f
CP_RS03195	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
CP_RS03200	COG0459	protein refolding
CP_RS03230	COG4285	Biotin-protein ligase, N terminal
CP_RS03235	COG0697	spore germination
CP_RS03255	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
CP_RS03260	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
CP_RS03270	COG0194	GDP metabolic process
CP_RS03275	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
CP_RS03280	COG0335	large ribosomal subunit rRNA binding
CP_RS03285	COG0336	Belongs to the RNA methyltransferase TrmD family
CP_RS03285	COG0346	lactoylglutathione lyase activity
CP_RS03290	COG0228	four-way junction DNA binding
CP_RS03295	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
CP_RS03305	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
CP_RS03310	COG0254	rRNA binding
CP_RS03325	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)
CP_RS03345	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
CP_RS03360	COG1294	oxidase, subunit
CP_RS03365	COG1271	oxidase subunit
CP_RS03370	COG1624	Catalyzes the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP), a second messenger used to regulate differing processes in different bacteria
CP_RS03385	COG1560	Kdo2-lipid A biosynthetic process
CP_RS03390	COG0469	pyruvate kinase activity
CP_RS03395	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
CP_RS03400	COG0515	serine threonine protein kinase
CP_RS03405	COG0525	valine-tRNA ligase activity
CP_RS03420	COG1269	ATP hydrolysis coupled proton transport
CP_RS03425	COG1394	ATPase activity, coupled to movement of substances
CP_RS03430	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
CP_RS03435	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
CP_RS03445	COG1390	Produces ATP from ADP in the presence of a proton gradient across the membrane
CP_RS03460	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
CP_RS03465	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
CP_RS03470	COG0085	RNA polymerase activity
CP_RS03475	COG0222	ribosome binding
CP_RS03480	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
CP_RS03485	COG0081	regulation of translation
CP_RS03490	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
CP_RS03495	COG0250	Participates in transcription elongation, termination and antitermination
CP_RS03510	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
CP_RS03520	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
CP_RS03595	COG0756	dUTP diphosphatase activity
CP_RS03600	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
CP_RS03605	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
CP_RS03610	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
CP_RS03620	COG0571	ribonuclease III activity
CP_RS03625	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
CP_RS03630	COG0181	hydroxymethylbilane synthase activity
CP_RS03650	COG1480	7TM receptor with intracellular HD hydrolase
CP_RS03690	COG2812	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
CP_RS03695	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
CP_RS03700	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)
CP_RS03705	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
CP_RS03730	COG0484	heat shock protein binding
CP_RS03735	COG0828	Belongs to the bacterial ribosomal protein bS21 family
CP_RS03740	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
CP_RS03755	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
CP_RS03765	COG1234	tRNA 3'-trailer cleavage
CP_RS03770	COG4974	Belongs to the 'phage' integrase family
CP_RS03775	COG0488	(ABC) transporter
CP_RS03780	COG0424	maF-like protein
CP_RS03795	COG3468	outer membrane autotransporter barrel domain protein
CP_RS03800	COG3468	outer membrane autotransporter barrel domain protein
CP_RS03810	COG3468	outer membrane autotransporter barrel domain protein
CP_RS03820	COG3468	outer membrane autotransporter barrel domain protein
CP_RS03825	COG3468	outer membrane autotransporter barrel domain protein
CP_RS03830	COG4625	pathogenesis
CP_RS03870	COG3210	domain, Protein
CP_RS03875	COG0064	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
CP_RS03880	COG0154	amidase activity
CP_RS03885	COG0721	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
CP_RS03900	COG0546	phosphoglycolate phosphatase activity
CP_RS03930	COG1039	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
CP_RS03935	COG0242	peptide deformylase activity
CP_RS03955	COG0149	triose-phosphate isomerase activity
CP_RS03960	COG1570	exodeoxyribonuclease VII activity
CP_RS03965	COG1722	exodeoxyribonuclease VII activity
CP_RS03975	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)
CP_RS03980	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
CP_RS03985	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
CP_RS03990	COG1331	Highly conserved protein containing a thioredoxin domain
CP_RS04025	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
CP_RS04030	COG0527	aspartate kinase activity
CP_RS04040	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
CP_RS04045	COG3186	Phenylalanine-4-hydroxylase
CP_RS04055	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
CP_RS04060	COG0156	8-amino-7-oxononanoate synthase activity
CP_RS04065	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
CP_RS04070	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
CP_RS04080	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
CP_RS04085	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
CP_RS04090	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
CP_RS04095	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
CP_RS04100	COG0710	3-dehydroquinate dehydratase activity
CP_RS04100	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)
CP_RS04105	COG0546	phosphoglycolate phosphatase activity
CP_RS04110	COG3659	wide pore channel activity
CP_RS04115	COG1945	arginine decarboxylase activity
CP_RS04120	COG0531	amino acid
CP_RS04135	COG0039	L-malate dehydrogenase activity
CP_RS04150	COG0166	Belongs to the GPI family
CP_RS04155	COG4974	Belongs to the 'phage' integrase family
CP_RS04195	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
CP_RS04200	COG0793	Belongs to the peptidase S41A family
CP_RS04210	COG0659	secondary active sulfate transmembrane transporter activity
CP_RS04215	COG0114	fumarate hydratase activity
CP_RS04220	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
CP_RS04230	COG2095	MarC family integral membrane protein
CP_RS04235	COG0024	Methionine aminopeptidase
CP_RS04280	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
CP_RS04285	COG1185	polyribonucleotide nucleotidyltransferase activity
CP_RS04295	COG0037	tRNA processing
CP_RS04320	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
CP_RS04325	COG0292	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit
CP_RS04330	COG0291	Belongs to the bacterial ribosomal protein bL35 family
CP_RS04335	COG0290	IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins
CP_RS04340	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
CP_RS04345	COG0812	UDP-N-acetylmuramate dehydrogenase activity
CP_RS04350	COG2519	Catalyzes the S-adenosyl-L-methionine-dependent formation of N(1)-methyladenine at position 58 (m1A58) in tRNA
CP_RS04360	COG0220	tRNA (guanine-N7-)-methyltransferase activity
CP_RS04365	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
CP_RS04370	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
CP_RS04370	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
CP_RS04380	COG1322	Protein conserved in bacteria
CP_RS04395	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
CP_RS04425	COG0074	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit
CP_RS04430	COG0045	succinate-CoA ligase (ADP-forming) activity
CP_RS04435	COG0552	protein localization to endoplasmic reticulum
CP_RS04440	COG0670	Belongs to the BI1 family
CP_RS04445	COG0814	amino acid
CP_RS04455	COG0814	amino acid
CP_RS04460	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
CP_RS04465	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
CP_RS04470	COG0617	tRNA 3'-terminal CCA addition
CP_RS04475	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
CP_RS04475	COG3952	Lipid A Biosynthesis
CP_RS04485	COG4625	pathogenesis
CP_RS04485	COG3210	domain, Protein
CP_RS04490	COG0416	fatty acid biosynthetic process
CP_RS04495	COG0333	Belongs to the bacterial ribosomal protein bL32 family
CP_RS04505	COG1530	ribonuclease E activity
CP_RS04515	COG1025	Belongs to the peptidase M16 family
CP_RS04530	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
CP_RS04535	COG0359	binds to the 23S rRNA
CP_RS04540	COG0238	Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
CP_RS04545	COG0360	Binds together with S18 to 16S ribosomal RNA
CP_RS04550	COG0193	aminoacyl-tRNA hydrolase activity
CP_RS04555	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
CP_RS04565	COG0297	glycogen (starch) synthase activity
CP_RS04575	COG0751	glycine-tRNA ligase activity
CP_RS04575	COG0752	glycyl-tRNA synthetase alpha subunit
CP_RS04595	COG0358	DNA primase activity
CP_RS04600	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
CP_RS04605	COG0322	excinuclease ABC activity
CP_RS04620	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
CP_RS04625	COG0257	Belongs to the bacterial ribosomal protein bL36 family
CP_RS04630	COG0230	Belongs to the bacterial ribosomal protein bL34 family
CP_RS04635	COG0594	ribonuclease P activity
CP_RS04640	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
CP_RS04645	COG0215	cysteine-tRNA ligase activity
CP_RS04650	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
CP_RS04675	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
CP_RS04685	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
CP_RS04690	COG0156	8-amino-7-oxononanoate synthase activity
CP_RS04695	COG0318	PFAM AMP-dependent synthetase and ligase
CP_RS04695	COG0204	Acyl-transferase
CP_RS04705	COG1218	3'(2'),5'-bisphosphate nucleotidase
CP_RS04715	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
CP_RS04725	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
CP_RS04730	COG0799	negative regulation of ribosome biogenesis
CP_RS04750	COG1060	Radical SAM enzyme that catalyzes the addition of the adenosyl radical to the double bond of 3- (1- carboxyvinyl)oxy benzoate, leading to aminodeoxyfutalosine (AFL), a key intermediate in the formation of menaquinone (MK, vitamin K2) from chorismate
CP_RS04755	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)
CP_RS04780	COG1181	Belongs to the D-alanine--D-alanine ligase family
CP_RS04780	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
CP_RS04785	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)
CP_RS04790	COG0772	Belongs to the SEDS family
CP_RS04795	COG1388	LysM domain
CP_RS04795	COG0791	NLP P60 protein
CP_RS04800	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
CP_RS04805	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
CP_RS04810	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
CP_RS04820	COG0459	protein refolding
CP_RS04835	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
CP_RS04845	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
CP_RS04850	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
CP_RS04855	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
CP_RS04860	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
CP_RS04865	COG0635	Involved in the biosynthesis of porphyrin-containing compound
CP_RS04870	COG1232	Catalyzes the 6-electron oxidation of protoporphyrinogen-IX to form protoporphyrin-IX
CP_RS04885	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
CP_RS04890	COG1862	Preprotein translocase
CP_RS04895	COG2871	sodium ion transport
CP_RS04935	COG1674	ftsk spoiiie
CP_RS04940	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
CP_RS04950	COG1881	PFAM PEBP family protein
CP_RS04955	COG1115	amino acid carrier protein
CP_RS04970	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
CP_RS04975	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
CP_RS04975	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
CP_RS04980	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
CP_RS04980	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
CP_RS04985	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)
CP_RS05000	COG0772	Belongs to the SEDS family
CP_RS05015	COG1187	pseudouridine synthase activity
CP_RS05020	COG0588	phosphoglycerate mutase activity
CP_RS05025	COG1104	cysteine desulfurase activity
CP_RS05035	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
CP_RS05060	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
CP_RS05080	COG1274	phosphoenolpyruvate carboxykinase (GTP) activity
CP_RS05085	COG1077	Cell shape determining protein MreB Mrl
CP_RS05090	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
CP_RS05100	COG0544	peptidyl-prolyl cis-trans isomerase activity
CP_RS05105	COG0740	serine-type endopeptidase activity
CP_RS05110	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
CP_RS05115	COG0617	tRNA 3'-terminal CCA addition
CP_RS05120	COG1160	GTP binding
CP_RS05135	COG0653	protein targeting
CP_RS05145	COG0688	phosphatidylethanolamine metabolic process
CP_RS05150	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
CP_RS05155	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
CP_RS05165	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
CP_RS05175	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
CP_RS05180	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
CP_RS05200	COG4669	(LipO)protein
CP_RS05220	COG4794	Type iii secretion
CP_RS05225	COG4791	protein targeting
CP_RS05250	COG2165	general secretion pathway protein
CP_RS05255	COG1459	type II secretion system
CP_RS05260	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
CP_RS05275	COG0006	proline dipeptidase activity
CP_RS05280	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
CP_RS05305	COG0697	spore germination
CP_RS05310	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)
CP_RS05315	COG1192	Involved in chromosome partitioning
CP_RS05330	COG0180	Tryptophanyl-tRNA synthetase
CP_RS05335	COG0556	nucleotide-excision repair
CP_RS05340	COG0148	phosphopyruvate hydratase activity
CP_RS05390	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
CP_RS05395	COG1053	succinate dehydrogenase
CP_RS05405	COG0084	hydrolase, TatD family'
CP_RS05410	COG4232	protein-disulfide reductase activity
CP_RS05415	COG0811	peptide transport
CP_RS05435	COG0823	Involved in the tonB-independent uptake of proteins
CP_RS05440	COG2885	chlorophyll binding
CP_RS05455	COG0450	alkyl hydroperoxide reductase
CP_RS05465	COG0459	protein refolding
CP_RS05475	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
CP_RS05485	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
CP_RS05490	COG0210	DNA helicase
CP_RS05505	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
CP_RS05510	COG0042	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines
CP_RS05535	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
CP_RS05540	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
CP_RS05545	COG5424	Ring cyclization and eight-electron oxidation of 3a-(2- amino-2-carboxyethyl)-4,5-dioxo-4,5,6,7,8,9-hexahydroquinoline- 7,9-dicarboxylic-acid to PQQ
CP_RS05555	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
CP_RS05560	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
CP_RS05560	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
CP_RS05565	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
CP_RS05570	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
CP_RS05575	COG4372	Transposase
CP_RS05580	COG0268	Binds directly to 16S ribosomal RNA
CP_RS05590	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
CP_RS05605	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
CP_RS05610	COG0142	geranyltranstransferase activity
CP_RS05625	COG1351	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 NAD(P)H and FADH(2) as the reductant