locus-tag	class	description
CF65_00002	COG0592	DNA-directed DNA polymerase activity
CF65_00004	COG2226	methyltransferase
CF65_00010	COG2801	Transposase and inactivated derivatives
CF65_00015	COG0281	malic enzyme
CF65_00021	COG0210	DNA helicase
CF65_00029	COG2189	Belongs to the N(4) N(6)-methyltransferase family
CF65_00038	COG2081	HI0933 family
CF65_00039	COG3088	subunit of a heme lyase
CF65_00039	COG4235	cytochrome complex assembly
CF65_00040	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
CF65_00041	COG1138	Cytochrome C-type biogenesis protein
CF65_00043	COG3301	Polysulphide reductase, NrfD
CF65_00044	COG0437	4 iron, 4 sulfur cluster binding
CF65_00046	COG3303	Catalyzes the reduction of nitrite to ammonia, consuming six electrons in the process
CF65_00055	COG1138	Cytochrome C-type biogenesis protein
CF65_00057	COG3114	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
CF65_00058	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
CF65_00059	COG2386	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
CF65_00061	COG4133	protoheme IX ABC transporter activity
CF65_00062	COG2814	Major facilitator Superfamily
CF65_00066	COG0280	phosphate acetyltransferase
CF65_00066	COG0281	malic enzyme
CF65_00071	COG2321	neutral zinc metallopeptidase
CF65_00076	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
CF65_00077	COG4623	carbon-oxygen lyase activity, acting on polysaccharides
CF65_00079	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
CF65_00084	COG0436	Aminotransferase
CF65_00086	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)
CF65_00087	COG2267	carboxylic ester hydrolase activity
CF65_00091	COG3091	SprT-like family
CF65_00092	COG0814	amino acid
CF65_00093	COG1760	l-serine dehydratase
CF65_00096	COG0252	asparaginase activity
CF65_00101	COG3063	Type IV pilus biogenesis stability protein PilW
CF65_00105	COG1426	Protein conserved in bacteria
CF65_00108	COG2976	Protein conserved in bacteria
CF65_00110	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
CF65_00112	COG2233	PERMEase
CF65_00113	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
CF65_00114	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
CF65_00115	COG1181	Belongs to the D-alanine--D-alanine ligase family
CF65_00115	COG2918	glutathione biosynthetic process
CF65_00116	COG2194	sulfuric ester hydrolase activity
CF65_00119	COG0740	serine-type endopeptidase activity
CF65_00126	COG3739	integral membrane protein
CF65_00128	COG2217	Heavy metal translocating P-type atpase
CF65_00131	COG0789	Transcriptional regulator
CF65_00132	COG1720	tRNA m6t6A37 methyltransferase activity
CF65_00134	COG1575	Belongs to the MenA family. Type 1 subfamily
CF65_00136	COG0471	metal ion transport
CF65_00137	COG3028	Belongs to the UPF0307 family
CF65_00139	COG0312	modulator of DNA gyrase
CF65_00141	COG0634	Belongs to the purine pyrimidine phosphoribosyltransferase family
CF65_00142	COG1929	Belongs to the glycerate kinase type-1 family
CF65_00143	COG2610	gluconate transmembrane transporter activity
CF65_00144	COG3835	regulator
CF65_00145	COG2801	Transposase and inactivated derivatives
CF65_00148	COG0513	Belongs to the DEAD box helicase family
CF65_00150	COG4785	May be involved in cell division
CF65_00153	COG2731	YhcH YjgK YiaL family protein
CF65_00158	COG3023	N-Acetylmuramoyl-L-alanine amidase
CF65_00160	COG4969	Belongs to the N-Me-Phe pilin family
CF65_00161	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
CF65_00162	COG1459	type II secretion system
CF65_00164	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
CF65_00164	COG0237	dephospho-CoA kinase activity
CF65_00165	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
CF65_00167	COG1115	amino acid carrier protein
CF65_00168	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
CF65_00175	COG2184	nucleotidyltransferase activity
CF65_00176	COG4145	pantothenate transmembrane transporter activity
CF65_00177	COG3924	membrane
CF65_00182	COG0439	Biotin carboxylase
CF65_00183	COG0511	ligase activity, forming carbon-carbon bonds
CF65_00189	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
CF65_00191	COG0456	acetyltransferase
CF65_00194	COG0635	Involved in the biosynthesis of porphyrin-containing compound
CF65_00196	COG3078	GTPase activator activity
CF65_00198	COG0590	tRNA wobble adenosine to inosine editing
CF65_00200	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
CF65_00202	COG0730	response to heat
CF65_00205	COG1869	D-ribose catabolic process
CF65_00208	COG1172	Belongs to the binding-protein-dependent transport system permease family
CF65_00209	COG1879	ABC-type sugar transport system periplasmic component
CF65_00212	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
CF65_00213	COG1278	Cold shock
CF65_00218	COG0165	Argininosuccinate lyase
CF65_00221	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
CF65_00223	COG0753	catalase activity
CF65_00229	COG0587	DNA-directed DNA polymerase activity
CF65_00231	COG1022	Amp-dependent synthetase and ligase
CF65_00236	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
CF65_00236	COG1328	CTP reductase activity
CF65_00241	COG0602	queuosine metabolic process
CF65_00244	COG0084	hydrolase, TatD family'
CF65_00247	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
CF65_00254	COG1686	Belongs to the peptidase S11 family
CF65_00256	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
CF65_00256	COG3087	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
CF65_00257	COG0772	Belongs to the SEDS family
CF65_00258	COG0768	penicillin binding
CF65_00260	COG0799	negative regulation of ribosome biogenesis
CF65_00263	COG0513	Belongs to the DEAD box helicase family
CF65_00265	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
CF65_00266	COG2814	Major facilitator Superfamily
CF65_00269	COG1028	Short-chain dehydrogenase reductase Sdr
CF65_00270	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
CF65_00273	COG0416	fatty acid biosynthetic process
CF65_00274	COG0333	Belongs to the bacterial ribosomal protein bL32 family
CF65_00275	COG1399	metal-binding, possibly nucleic acid-binding protein
CF65_00277	COG0500	methyltransferase
CF65_00278	COG2830	Protein of unknown function (DUF452)
CF65_00280	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
CF65_00281	COG0688	phosphatidylethanolamine metabolic process
CF65_00282	COG0545	Peptidyl-prolyl cis-trans isomerase
CF65_00288	COG2966	Psort location CytoplasmicMembrane, score
CF65_00290	COG3610	response to peptide
CF65_00292	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
CF65_00296	COG1253	flavin adenine dinucleotide binding
CF65_00301	COG0084	hydrolase, TatD family'
CF65_00302	COG0470	DNA polymerase III
CF65_00303	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
CF65_00305	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
CF65_00306	COG0347	Belongs to the P(II) protein family
CF65_00308	COG1349	DNA-binding transcription factor activity
CF65_00309	COG2084	Dehydrogenase
CF65_00310	COG3395	kinase activity
CF65_00311	COG0235	Class ii aldolase
CF65_00312	COG3622	Belongs to the hyi family
CF65_00316	COG0561	phosphatase activity
CF65_00325	COG3085	chromosome segregation
CF65_00326	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
CF65_00327	COG3084	Protein conserved in bacteria
CF65_00329	COG0746	molybdenum cofactor guanylyltransferase activity
CF65_00332	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
CF65_00332	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
CF65_00333	COG1105	Belongs to the carbohydrate kinase PfkB family
CF65_00335	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
CF65_00335	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
CF65_00335	COG3925	protein-phosphocysteine-D-fructose-phosphotransferase system transporter activity
CF65_00344	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
CF65_00350	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
CF65_00357	COG1943	Transposase
CF65_00358	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
CF65_00359	COG0255	Belongs to the universal ribosomal protein uL29 family
CF65_00361	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
CF65_00362	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
CF65_00363	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
CF65_00365	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
CF65_00366	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
CF65_00367	COG0089	rRNA binding
CF65_00368	COG0088	Forms part of the polypeptide exit tunnel
CF65_00369	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
CF65_00370	COG0051	transcription antitermination factor activity, RNA binding
CF65_00371	COG0583	DNA-binding transcription factor activity
CF65_00372	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
CF65_00373	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
CF65_00374	COG2031	fatty acid transporter
CF65_00377	COG0183	Belongs to the thiolase family
CF65_00379	COG1288	antiporter activity
CF65_00380	COG0549	Belongs to the carbamate kinase family
CF65_00381	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
CF65_00383	COG0038	chloride channel
CF65_00384	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
CF65_00387	COG1522	sequence-specific DNA binding
CF65_00388	COG2820	Catalyzes the reversible phosphorylytic cleavage of uridine and deoxyuridine to uracil and ribose- or deoxyribose-1- phosphate. The produced molecules are then utilized as carbon and energy sources or in the rescue of pyrimidine bases for nucleotide synthesis
CF65_00391	COG1393	Belongs to the ArsC family
CF65_00396	COG3036	rescue of stalled ribosome
CF65_00397	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
CF65_00398	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
CF65_00399	COG2841	Protein conserved in bacteria
CF65_00404	COG3076	Globally modulates RNA abundance by binding to RNase E (Rne) and regulating its endonucleolytic activity. Can modulate Rne action in a substrate-dependent manner by altering the composition of the degradosome
CF65_00407	COG0569	domain protein
CF65_00408	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
CF65_00408	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
CF65_00415	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
CF65_00420	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
CF65_00422	COG2990	Protein conserved in bacteria
CF65_00425	COG0606	chelatase, subunit chli
CF65_00426	COG0606	chelatase, subunit chli
CF65_00434	COG3501	Rhs element vgr protein
CF65_00448	COG0606	chelatase, subunit chli
CF65_00449	COG2861	carbohydrate metabolic process
CF65_00450	COG4942	peptidase
CF65_00452	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
CF65_00455	COG2853	Lipoprotein
CF65_00458	COG0747	negative chemotaxis
CF65_00468	COG0814	amino acid
CF65_00470	COG4783	chaperone-mediated protein folding
CF65_00471	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
CF65_00474	COG0552	protein localization to endoplasmic reticulum
CF65_00475	COG0742	ribosomal rna small subunit methyltransferase
CF65_00478	COG2893	phosphoenolpyruvate-dependent sugar phosphotransferase system
CF65_00478	COG3444	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
CF65_00479	COG3715	PTS system
CF65_00480	COG3716	PTS system mannose fructose sorbose family IID component
CF65_00482	COG0561	phosphatase activity
CF65_00486	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
CF65_00491	COG0726	polysaccharide deacetylase
CF65_00491	COG1649	PFAM Uncharacterised BCR, COG1649
CF65_00492	COG1215	transferase activity, transferring glycosyl groups
CF65_00497	COG2271	Major facilitator Superfamily
CF65_00506	COG0513	Belongs to the DEAD box helicase family
CF65_00511	COG3201	nicotinamide mononucleotide transporter
CF65_00512	COG3201	nicotinamide mononucleotide transporter
CF65_00518	COG1238	metal cluster binding
CF65_00519	COG0110	maltose O-acetyltransferase activity
CF65_00521	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
CF65_00527	COG0210	DNA helicase
CF65_00528	COG5645	(Lipo)protein
CF65_00531	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
CF65_00531	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
CF65_00536	COG0737	Belongs to the 5'-nucleotidase family
CF65_00539	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
CF65_00543	COG0859	PFAM glycosyl transferase family 9
CF65_00544	COG0754	glutathionylspermidine amidase activity
CF65_00545	COG0754	glutathionylspermidine amidase activity
CF65_00546	COG3005	denitrification pathway
CF65_00547	COG3043	anaerobic respiration
CF65_00549	COG0348	domain, Protein
CF65_00550	COG0437	4 iron, 4 sulfur cluster binding
CF65_00552	COG0243	molybdopterin cofactor binding
CF65_00553	COG3062	negative regulation of establishment of protein localization
CF65_00557	COG3850	Histidine kinase
CF65_00558	COG0812	UDP-N-acetylmuramate dehydrogenase activity
CF65_00560	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
CF65_00561	COG3070	regulator of competence-specific genes
CF65_00563	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
CF65_00566	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
CF65_00573	COG2962	Rard protein
CF65_00578	COG0551	DNA topoisomerase type I activity
CF65_00581	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
CF65_00583	COG0705	Rhomboid family
CF65_00585	COG1349	DNA-binding transcription factor activity
CF65_00586	COG1349	DNA-binding transcription factor activity
CF65_00591	COG4178	(ABC) transporter
CF65_00600	COG0233	cytoplasmic translational termination
CF65_00603	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
CF65_00605	COG0575	Belongs to the CDS family
CF65_00609	COG2825	PFAM Outer membrane chaperone Skp (OmpH)
CF65_00611	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
CF65_00613	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
CF65_00615	COG0471	metal ion transport
CF65_00615	COG0490	domain, Protein
CF65_00616	COG4589	Belongs to the CDS family
CF65_00618	COG0521	Mo-molybdopterin cofactor biosynthetic process
CF65_00628	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
CF65_00628	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
CF65_00629	COG0517	IMP dehydrogenase activity
CF65_00629	COG0516	GMP reductase activity
CF65_00632	COG2932	Transcriptional regulator
CF65_00634	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
CF65_00635	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
CF65_00637	COG2062	phosphohistidine phosphatase, SixA
CF65_00642	COG3100	YcgL domain-containing protein
CF65_00644	COG0791	NLP P60 protein
CF65_00647	COG2890	protein-(glutamine-N5) methyltransferase activity
CF65_00649	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
CF65_00650	COG3133	Outer membrane lipoprotein
CF65_00651	COG3102	Protein conserved in bacteria
CF65_00654	COG5339	Protein conserved in bacteria
CF65_00657	COG0443	Heat shock 70 kDa protein
CF65_00659	COG0484	heat shock protein binding
CF65_00662	COG0626	cystathionine gamma-synthase activity
CF65_00663	COG0626	cystathionine gamma-synthase activity
CF65_00664	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
CF65_00668	COG3021	interspecies interaction between organisms
CF65_00674	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
CF65_00675	COG2999	glutathione oxidoreductase activity
CF65_00679	COG1530	ribonuclease E activity
CF65_00680	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
CF65_00696	COG1840	ABC-type Fe3 transport system, periplasmic component
CF65_00698	COG1840	ABC-type Fe3 transport system, periplasmic component
CF65_00706	COG0565	Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA
CF65_00707	COG1959	2 iron, 2 sulfur cluster binding
CF65_00709	COG0822	iron-sulfur transferase activity
CF65_00713	COG0443	Heat shock 70 kDa protein
CF65_00715	COG0633	Ferredoxin
CF65_00716	COG2975	iron-sulfur cluster assembly
CF65_00717	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
CF65_00717	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
CF65_00718	COG0489	protein tyrosine kinase activity
CF65_00722	COG0105	UTP biosynthetic process
CF65_00729	COG4535	Mg2 and Co2 transporter CorC
CF65_00732	COG3053	Acetylation of prosthetic group (2-(5''-phosphoribosyl)- 3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase
CF65_00735	COG2301	Belongs to the HpcH HpaI aldolase family
CF65_00737	COG3051	citrate lyase alpha subunit
CF65_00740	COG3697	Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase
CF65_00740	COG1767	triphosphoribosyl-dephospho-CoA synthase activity
CF65_00741	COG0471	metal ion transport
CF65_00744	COG2017	converts alpha-aldose to the beta-anomer
CF65_00745	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
CF65_00747	COG1085	galactose-1-phosphate uridylyltransferase
CF65_00749	COG1609	Transcriptional regulator
CF65_00750	COG1879	ABC-type sugar transport system periplasmic component
CF65_00753	COG4211	Belongs to the binding-protein-dependent transport system permease family
CF65_00757	COG5002	protein histidine kinase activity
CF65_00757	COG2198	Histidine kinase
CF65_00757	COG0784	Response regulator, receiver
CF65_00759	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
CF65_00760	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
CF65_00760	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
CF65_00761	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
CF65_00761	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
CF65_00766	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
CF65_00769	COG0497	DNA recombination
CF65_00770	COG3047	cAMP biosynthetic process
CF65_00774	COG2917	probably involved in intracellular septation
CF65_00775	COG1607	acyl-coa hydrolase
CF65_00776	COG2350	Protein conserved in bacteria
CF65_00777	COG0741	lytic transglycosylase activity
CF65_00780	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
CF65_00785	COG0582	viral genome integration into host DNA
CF65_00789	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
CF65_00790	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
CF65_00794	COG1408	metallophosphoesterase
CF65_00795	COG4594	ABC-type Fe3 -citrate transport system, periplasmic component
CF65_00796	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
CF65_00798	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
CF65_00799	COG1120	ATPase activity
CF65_00804	COG1053	succinate dehydrogenase
CF65_00805	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
CF65_00807	COG3080	Seems to be involved in the anchoring of the catalytic components of the fumarate reductase complex to the cytoplasmic membrane
CF65_00816	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
CF65_00817	COG0494	nUDIX hydrolase
CF65_00819	COG1876	peptidase activity
CF65_00822	COG1393	Belongs to the ArsC family
CF65_00823	COG0326	Molecular chaperone. Has ATPase activity
CF65_00825	COG1605	Chorismate mutase
CF65_00825	COG0077	Prephenate dehydratase
CF65_00827	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
CF65_00830	COG0849	cell division
CF65_00831	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
CF65_00835	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)
CF65_00838	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
CF65_00840	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
CF65_00844	COG0768	penicillin binding
CF65_00846	COG3116	cell division
CF65_00851	COG1966	Carbon starvation protein
CF65_00854	COG4160	amino acid transport
CF65_00855	COG4215	(ABC) transporter
CF65_00856	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
CF65_00858	COG1126	abc transporter atp-binding protein
CF65_00861	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
CF65_00863	COG1444	tRNA N-acetyltransferase activity
CF65_00865	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
CF65_00871	COG4964	Belongs to the GSP D family
CF65_00884	COG0733	neurotransmitter:sodium symporter activity
CF65_00892	COG3276	selenocysteine insertion sequence binding
CF65_00894	COG1921	L-seryl-tRNASec selenium transferase activity
CF65_00896	COG0442	prolyl-tRNA aminoacylation
CF65_00899	COG2076	Multidrug Resistance protein
CF65_00902	COG1595	DNA-templated transcription, initiation
CF65_00904	COG3073	An anti-sigma factor for extracytoplasmic function (ECF) sigma factor sigma-E (RpoE). ECF sigma factors are held in an inactive form by an anti-sigma factor until released by regulated intramembrane proteolysis (RIP). RIP occurs when an extracytoplasmic signal triggers a concerted proteolytic cascade to transmit information and elicit cellular responses. The membrane-spanning regulatory substrate protein is first cut periplasmically (site-1 protease, S1P, DegS), then within the membrane itself (site-2 protease, S2P, RseP), while cytoplasmic proteases finish degrading the anti-sigma factor, liberating sigma-E
CF65_00906	COG3026	antisigma factor binding
CF65_00908	COG3086	response to oxidative stress
CF65_00909	COG1763	Mo-molybdopterin cofactor biosynthetic process
CF65_00912	COG0300	oxidoreductase activity
CF65_00914	COG2195	Cleaves the N-terminal amino acid of tripeptides
CF65_00919	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
CF65_00920	COG2818	Glycosylase
CF65_00921	COG3477	response to acidic pH
CF65_00923	COG0019	diaminopimelate decarboxylase activity
CF65_00927	COG0514	ATP-dependent DNA helicase (RecQ)
CF65_00929	COG0187	DNA topoisomerase II activity
CF65_00930	COG1072	(Pantothenic acid kinase))
CF65_00931	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
CF65_00932	COG1879	ABC-type sugar transport system periplasmic component
CF65_00934	COG1129	ABC transporter
CF65_00936	COG1172	Belongs to the binding-protein-dependent transport system permease family
CF65_00939	COG2183	response to ionizing radiation
CF65_00940	COG0583	DNA-binding transcription factor activity
CF65_00941	COG0471	metal ion transport
CF65_00943	COG2183	response to ionizing radiation
CF65_00944	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
CF65_00948	COG1595	DNA-templated transcription, initiation
CF65_00950	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
CF65_00952	COG3071	HemY protein
CF65_00953	COG2959	enzyme of heme biosynthesis
CF65_00957	COG0181	hydroxymethylbilane synthase activity
CF65_00959	COG2197	response regulator
CF65_00960	COG0729	surface antigen
CF65_00961	COG2911	Protein conserved in bacteria
CF65_00962	COG0248	Ppx GppA phosphatase
CF65_00970	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
CF65_00971	COG3068	Protein conserved in bacteria
CF65_00973	COG1349	DNA-binding transcription factor activity
CF65_00974	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
CF65_00981	COG2272	Belongs to the type-B carboxylesterase lipase family
CF65_00982	COG0667	Aldo Keto reductase
CF65_00983	COG0656	L-ascorbic acid biosynthetic process
CF65_00988	COG0433	COG0433 Predicted ATPase
CF65_00990	COG2258	MOSC domain
CF65_00991	COG3012	SEC-C Motif Domain Protein
CF65_00994	COG0786	glutamate:sodium symporter activity
CF65_00995	COG2205	protein histidine kinase activity
CF65_00997	COG0745	RESPONSE REGULATOR receiver
CF65_00998	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
CF65_01003	COG3082	Protein of unknown function (DUF1414)
CF65_01005	COG3083	sulfuric ester hydrolase activity
CF65_01006	COG0402	S-adenosylhomocysteine deaminase activity
CF65_01008	COG3956	TIGRFAM MazG family protein
CF65_01012	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
CF65_01013	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
CF65_01014	COG1210	Utp--glucose-1-phosphate uridylyltransferase
CF65_01015	COG3060	This regulatory protein, when combined with SAM (S- adenosylmethionine) represses the expression of the methionine regulon and of enzymes involved in SAM synthesis
CF65_01017	COG1385	rRNA (uridine-N3-)-methyltransferase activity
CF65_01020	COG0148	phosphopyruvate hydratase activity
CF65_01023	COG2991	Protein conserved in bacteria
CF65_01024	COG1477	protein flavinylation
CF65_01027	COG2871	sodium ion transport
CF65_01028	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
CF65_01029	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
CF65_01031	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
CF65_01039	COG0271	Belongs to the BolA IbaG family
CF65_01040	COG3056	Lipoprotein
CF65_01043	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
CF65_01044	COG1194	a g-specific adenine glycosylase
CF65_01046	COG3171	Protein conserved in bacteria
CF65_01048	COG1840	ABC-type Fe3 transport system, periplasmic component
CF65_01050	COG1178	ABC-type Fe3 transport system permease component
CF65_01051	COG3842	ATPase activity
CF65_01053	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
CF65_01056	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
CF65_01059	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
CF65_01063	COG1561	YicC-like family, N-terminal region
CF65_01064	COG0354	folic acid binding
CF65_01069	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
CF65_01070	COG1381	Involved in DNA repair and RecF pathway recombination
CF65_01071	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
CF65_01072	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
CF65_01074	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
CF65_01077	COG2801	Transposase and inactivated derivatives
CF65_01078	COG0789	Transcriptional regulator
CF65_01079	COG4701	Protein of unknown function (DUF721)
CF65_01085	COG0494	nUDIX hydrolase
CF65_01087	COG1466	dna polymerase III delta subunit
CF65_01088	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
CF65_01096	COG1708	protein C-terminal S-isoprenylcysteine carboxyl O-methyltransferase activity
CF65_01097	COG1708	protein C-terminal S-isoprenylcysteine carboxyl O-methyltransferase activity
CF65_01098	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
CF65_01099	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
CF65_01101	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
CF65_01107	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
CF65_01109	COG4221	oxidoreductase activity
CF65_01111	COG0789	Transcriptional regulator
CF65_01113	COG0789	Transcriptional regulator
CF65_01114	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
CF65_01115	COG0627	Serine hydrolase involved in the detoxification of formaldehyde
CF65_01117	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
CF65_01120	COG4137	Cytochrome C assembly protein
CF65_01123	COG4536	flavin adenine dinucleotide binding
CF65_01124	COG0811	peptide transport
CF65_01137	COG0243	molybdopterin cofactor binding
CF65_01138	COG0437	4 iron, 4 sulfur cluster binding
CF65_01140	COG3302	dmso reductase anchor subunit
CF65_01141	COG3381	protein complex oligomerization
CF65_01146	COG4545	Glutaredoxin-related protein
CF65_01152	COG0805	protein transport
CF65_01153	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
CF65_01154	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
CF65_01156	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
CF65_01158	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
CF65_01159	COG1011	Hydrolase
CF65_01160	COG0494	nUDIX hydrolase
CF65_01161	COG4977	sequence-specific DNA binding
CF65_01161	COG1917	Cupin 2, conserved barrel domain protein
CF65_01162	COG3059	membrane
CF65_01164	COG1297	OPT oligopeptide transporter protein
CF65_01166	COG1218	3'(2'),5'-bisphosphate nucleotidase
CF65_01167	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
CF65_01168	COG0363	glucosamine-6-phosphate deaminase activity
CF65_01171	COG1794	racemase activity, acting on amino acids and derivatives
CF65_01172	COG4545	Glutaredoxin-related protein
CF65_01177	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
CF65_01179	COG1028	Short-chain dehydrogenase reductase Sdr
CF65_01182	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
CF65_01195	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
CF65_01201	COG1011	Hydrolase
CF65_01203	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
CF65_01213	COG1596	polysaccharide export
CF65_01213	COG1555	photosystem II stabilization
CF65_01215	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
CF65_01216	COG0561	phosphatase activity
CF65_01220	COG1040	competence protein
CF65_01223	COG1114	Component of the transport system for branched-chain amino acids
CF65_01226	COG1943	Transposase
CF65_01228	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
CF65_01230	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
CF65_01232	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
CF65_01234	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
CF65_01237	COG0201	protein transport
CF65_01241	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
CF65_01244	COG1943	Transposase
CF65_01245	COG0814	amino acid
CF65_01249	COG2129	metallophosphoesterase
CF65_01250	COG3172	ATPase kinase involved in NAD metabolism
CF65_01252	COG0425	Belongs to the sulfur carrier protein TusA family
CF65_01254	COG1739	Uncharacterized protein family UPF0029
CF65_01258	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
CF65_01259	COG4635	menaquinone-dependent protoporphyrinogen oxidase activity
CF65_01264	COG3054	Bacterial protein of unknown function (YtfJ_HI0045)
CF65_01265	COG3054	Bacterial protein of unknown function (YtfJ_HI0045)
CF65_01268	COG2801	Transposase and inactivated derivatives
CF65_01273	COG2364	Membrane
CF65_01276	COG0859	PFAM glycosyl transferase family 9
CF65_01277	COG1027	Aspartate ammonia-lyase
CF65_01280	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
CF65_01284	COG0459	protein refolding
CF65_01287	COG2801	Transposase and inactivated derivatives
CF65_01291	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
CF65_01294	COG0338	D12 class N6 adenine-specific DNA methyltransferase
CF65_01297	COG4796	Type ii and iii secretion system protein
CF65_01303	COG4972	Pilus assembly protein
CF65_01304	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
CF65_01305	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
CF65_01306	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
CF65_01311	COG1309	transcriptional regulator
CF65_01315	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
CF65_01319	COG2932	Transcriptional regulator
CF65_01324	COG0267	Belongs to the bacterial ribosomal protein bL33 family
CF65_01330	COG3306	glycosyltransferase involved in LPS biosynthesis
CF65_01332	COG3306	glycosyltransferase involved in LPS biosynthesis
CF65_01335	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
CF65_01337	COG3087	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
CF65_01339	COG1309	transcriptional regulator
CF65_01340	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
CF65_01341	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
CF65_01342	COG0500	methyltransferase
CF65_01345	COG0762	integral membrane protein
CF65_01349	COG0778	Nitroreductase
CF65_01351	COG1368	sulfuric ester hydrolase activity
CF65_01357	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
CF65_01360	COG0006	proline dipeptidase activity
CF65_01369	COG2891	Involved in formation of the rod shape of the cell. May also contribute to regulation of formation of penicillin-binding proteins
CF65_01370	COG1792	Involved in formation and maintenance of cell shape
CF65_01371	COG1077	Cell shape determining protein MreB Mrl
CF65_01372	COG0557	exoribonuclease II activity
CF65_01378	COG2271	Major facilitator Superfamily
CF65_01379	COG0584	glycerophosphoryl diester phosphodiesterase
CF65_01383	COG0758	DNA mediated transformation
CF65_01393	COG1132	(ABC) transporter
CF65_01394	COG4977	sequence-specific DNA binding
CF65_01394	COG1917	Cupin 2, conserved barrel domain protein
CF65_01395	COG0599	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
CF65_01396	COG0859	PFAM glycosyl transferase family 9
CF65_01401	COG1519	Transferase
CF65_01402	COG0463	Glycosyl transferase, family 2
CF65_01407	COG4942	peptidase
CF65_01407	COG1388	LysM domain
CF65_01409	COG1238	metal cluster binding
CF65_01419	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
CF65_01422	COG2884	Cell division ATP-binding protein ftsE
CF65_01423	COG2177	Part of the ABC transporter FtsEX involved in
CF65_01424	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
CF65_01426	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
CF65_01429	COG0028	Belongs to the TPP enzyme family
CF65_01431	COG0561	phosphatase activity
CF65_01432	COG2267	carboxylic ester hydrolase activity
CF65_01434	COG3307	-O-antigen
CF65_01436	COG0191	fructose-bisphosphate aldolase activity
CF65_01438	COG3719	Belongs to the RNase T2 family
CF65_01439	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
CF65_01441	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
CF65_01442	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
CF65_01444	COG2801	Transposase and inactivated derivatives
CF65_01449	COG0582	viral genome integration into host DNA
CF65_01451	COG1070	Carbohydrate kinase
CF65_01453	COG2115	Belongs to the xylose isomerase family
CF65_01455	COG4213	ABC transporter substrate-binding protein
CF65_01456	COG1129	ABC transporter
CF65_01457	COG4214	carbohydrate transport
CF65_01458	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
CF65_01459	COG1757	Na H antiporter
CF65_01462	COG1609	Transcriptional regulator
CF65_01462	COG2207	Transcriptional regulator
CF65_01463	COG2814	Major facilitator Superfamily
CF65_01465	COG2893	phosphoenolpyruvate-dependent sugar phosphotransferase system
CF65_01465	COG3444	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
CF65_01466	COG3715	PTS system
CF65_01467	COG3716	PTS system mannose fructose sorbose family IID component
CF65_01473	COG0732	type I restriction modification DNA specificity domain
CF65_01479	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
CF65_01484	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
CF65_01487	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
CF65_01491	COG3312	ion transport
CF65_01494	COG1733	regulation of RNA biosynthetic process
CF65_01495	COG0702	epimerase
CF65_01497	COG0716	FMN binding
CF65_01499	COG1494	fructose-1,6-bisphosphatase
CF65_01502	COG1045	serine acetyltransferase
CF65_01506	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
CF65_01507	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
CF65_01508	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
CF65_01509	COG4988	ABC transporter
CF65_01510	COG1132	(ABC) transporter
CF65_01511	COG1309	transcriptional regulator
CF65_01513	COG0583	DNA-binding transcription factor activity
CF65_01514	COG0678	peroxiredoxin activity
CF65_01514	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
CF65_01515	COG2900	Belongs to the SlyX family
CF65_01517	COG0545	Peptidyl-prolyl cis-trans isomerase
CF65_01519	COG2964	Protein conserved in bacteria
CF65_01523	COG2168	tRNA wobble position uridine thiolation
CF65_01524	COG1126	abc transporter atp-binding protein
CF65_01525	COG0765	amino acid transport
CF65_01526	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
CF65_01528	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
CF65_01534	COG2357	RelA SpoT domain protein
CF65_01537	COG2103	Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate
CF65_01539	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
CF65_01546	COG1349	DNA-binding transcription factor activity
CF65_01549	COG2963	transposase activity
CF65_01554	COG2095	MarC family integral membrane protein
CF65_01557	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
CF65_01559	COG2137	regulation of response to DNA damage stimulus
CF65_01561	COG0251	oxidation-reduction process
CF65_01564	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
CF65_01568	COG4172	Belongs to the ABC transporter superfamily
CF65_01569	COG4172	Belongs to the ABC transporter superfamily
CF65_01571	COG4171	peptide transport system, permease
CF65_01572	COG4168	peptide transport system, permease
CF65_01573	COG4166	transmembrane transport
CF65_01575	COG3106	COG3106 Predicted ATPase
CF65_01579	COG3283	Transcriptional regulator of aromatic amino acids metabolism
CF65_01586	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
CF65_01588	COG1388	LysM domain
CF65_01588	COG0860	N-Acetylmuramoyl-L-alanine amidase
CF65_01589	COG0802	atpase or kinase
CF65_01594	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
CF65_01596	COG2194	sulfuric ester hydrolase activity
CF65_01599	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
CF65_01600	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)
CF65_01601	COG2190	(PTS) system
CF65_01603	COG0339	signal peptide processing
CF65_01604	COG2832	Protein of unknown function (DUF454)
CF65_01607	COG4166	transmembrane transport
CF65_01608	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
CF65_01611	COG0512	Glutamine amidotransferase of anthranilate synthase
CF65_01614	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
CF65_01615	COG4591	ABC-type transport system involved in lipoprotein release permease component
CF65_01618	COG4591	ABC-type transport system involved in lipoprotein release permease component
CF65_01619	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
CF65_01621	COG0305	Participates in initiation and elongation during chromosome replication
CF65_01624	COG0166	Belongs to the GPI family
CF65_01625	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
CF65_01628	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
CF65_01629	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
CF65_01630	COG1280	lysine exporter protein (LysE YggA)
CF65_01633	COG0633	Ferredoxin
CF65_01635	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
CF65_01637	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
CF65_01642	COG1840	ABC-type Fe3 transport system, periplasmic component
CF65_01645	COG3842	ATPase activity
CF65_01648	COG0366	Alpha amylase catalytic
CF65_01649	COG3833	ABC-type maltose transport systems, permease component
CF65_01654	COG2182	Extracellular solute-binding protein
CF65_01656	COG3842	ATPase activity
CF65_01657	COG4580	involved in the transport of maltose and maltodextrins
CF65_01661	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
CF65_01662	COG0303	'Molybdopterin
CF65_01666	COG2027	D-alanyl-D-alanine carboxypeptidase
CF65_01668	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
CF65_01670	COG1534	Rna-binding protein
CF65_01671	COG3657	addiction module killer protein
CF65_01672	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
CF65_01673	COG0307	riboflavin synthase, alpha
CF65_01678	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
CF65_01679	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
CF65_01681	COG0725	ABC transporter, periplasmic molybdate-binding protein
CF65_01682	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
CF65_01684	COG3842	ATPase activity
CF65_01689	COG2855	membrane
CF65_01690	COG4953	penicillin-binding protein 1C
CF65_01692	COG0269	3-dehydro-L-gulonate-6-phosphate decarboxylase activity
CF65_01700	COG3623	hexulose-6-phosphate isomerase
CF65_01703	COG0235	Class ii aldolase
CF65_01704	COG0814	amino acid
CF65_01708	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
CF65_01709	COG0778	Nitroreductase
CF65_01715	COG2268	Band 7 protein
CF65_01717	COG0114	fumarate hydratase activity
CF65_01718	COG2927	DNA polymerase III (CHI subunit)
CF65_01728	COG3550	peptidyl-serine autophosphorylation
CF65_01731	COG2814	Major facilitator Superfamily
CF65_01732	COG1566	PFAM secretion protein HlyD family protein
CF65_01734	COG0783	Belongs to the Dps family
CF65_01738	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
CF65_01739	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
CF65_01740	COG0602	queuosine metabolic process
CF65_01741	COG0720	synthase
CF65_01743	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
CF65_01746	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
CF65_01747	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
CF65_01748	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
CF65_01750	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
CF65_01751	COG5266	PFAM Nickel transport complex, NikM subunit, transmembrane
CF65_01753	COG0310	cobalt ion transport
CF65_01755	COG0310	cobalt ion transport
CF65_01756	COG0619	Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates
CF65_01757	COG1122	ATPase activity
CF65_01758	COG0378	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG
CF65_01759	COG0409	Hydrogenase expression formation protein
CF65_01760	COG0309	Hydrogenase expression formation protein (HypE)
CF65_01763	COG2932	Transcriptional regulator
CF65_01765	COG2801	Transposase and inactivated derivatives
CF65_01772	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)
CF65_01774	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
CF65_01776	COG0795	lipopolysaccharide-transporting ATPase activity
CF65_01777	COG0795	lipopolysaccharide-transporting ATPase activity
CF65_01778	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
CF65_01779	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
CF65_01780	COG4149	molybdate abc transporter
CF65_01781	COG0725	ABC transporter, periplasmic molybdate-binding protein
CF65_01782	COG2005	Transcriptional regulator
CF65_01784	COG0471	metal ion transport
CF65_01789	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
CF65_01790	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
CF65_01790	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
CF65_01792	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
CF65_01794	COG0583	DNA-binding transcription factor activity
CF65_01796	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
CF65_01801	COG0039	L-malate dehydrogenase activity
CF65_01803	COG1438	arginine binding
CF65_01804	COG1090	epimerase
CF65_01805	COG4657	Part of a membrane complex involved in electron transport
CF65_01814	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
CF65_01815	COG0733	neurotransmitter:sodium symporter activity
CF65_01818	COG1108	ABC-type Mn2 Zn2 transport systems permease components
CF65_01822	COG0739	heme binding
CF65_01824	COG4604	ABC transporter, ATP-binding protein
CF65_01825	COG4605	iron ion homeostasis
CF65_01826	COG4606	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
CF65_01827	COG4607	ABC-type enterochelin transport system periplasmic component
CF65_01830	COG0737	Belongs to the 5'-nucleotidase family
CF65_01835	COG3111	PFAM Bacterial OB fold (BOF) protein
CF65_01837	COG0745	RESPONSE REGULATOR receiver
CF65_01841	COG3392	D12 class N6 adenine-specific DNA methyltransferase
CF65_01842	COG0745	RESPONSE REGULATOR receiver
CF65_01843	COG0642	Histidine kinase
CF65_01845	COG0405	Gamma-glutamyltransferase
CF65_01850	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
CF65_01852	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
CF65_01854	COG4683	PFAM Phage derived protein Gp49-like (DUF891)
CF65_01861	COG0351	phosphomethylpyrimidine kinase
CF65_01865	COG4143	(ABC) transporter
CF65_01866	COG1178	ABC-type Fe3 transport system permease component
CF65_01867	COG3840	Part of the ABC transporter complex ThiBPQ involved in thiamine import. Responsible for energy coupling to the transport system
CF65_01869	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
CF65_01871	COG3105	Protein conserved in bacteria
CF65_01872	COG1944	ATP diphosphatase activity
CF65_01874	COG3422	double-strand break repair
CF65_01875	COG1263	PTS System
CF65_01875	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
CF65_01876	COG1263	PTS System
CF65_01876	COG2190	(PTS) system
CF65_01876	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
CF65_01878	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
CF65_01880	COG1846	Transcriptional regulator
CF65_01880	COG1940	carbohydrate kinase activity
CF65_01881	COG0563	adenylate kinase activity
CF65_01883	COG2814	Major facilitator Superfamily
CF65_01885	COG0375	protein maturation
CF65_01886	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
CF65_01887	COG3152	Membrane
CF65_01889	COG2252	PERMEase
CF65_01893	COG0825	malonyl-CoA metabolic process
CF65_01894	COG2351	hydroxyisourate hydrolase activity
CF65_01906	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
CF65_01914	COG3041	Addiction module toxin RelE StbE family
CF65_01915	COG3077	Addiction module antitoxin, RelB DinJ family
CF65_01918	COG3069	C4-dicarboxylate transmembrane transporter activity
CF65_01920	COG0195	Participates in both transcription termination and antitermination
CF65_01928	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
CF65_01930	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
CF65_01938	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
CF65_01939	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
CF65_01944	COG3177	Filamentation induced by cAMP protein fic
CF65_01948	COG1175	transmembrane transport
CF65_01950	COG0395	ABC-type sugar transport system, permease component
CF65_01954	COG0322	excinuclease ABC activity
CF65_01957	COG2835	tetraacyldisaccharide 4'-kinase activity
CF65_01959	COG1663	tetraacyldisaccharide 4'-kinase activity
CF65_01961	COG1132	(ABC) transporter
CF65_01962	COG0658	competence protein
CF65_01962	COG2333	competence protein COMEC
CF65_01963	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
CF65_01965	COG0617	tRNA 3'-terminal CCA addition
CF65_01966	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
CF65_01972	COG0280	phosphate acetyltransferase
CF65_01972	COG0857	belongs to the CobB CobQ family
CF65_01973	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
CF65_01974	COG3092	negative regulation of chromosome organization
CF65_01976	COG1286	toxin biosynthetic process
CF65_01981	COG1640	4-alpha-glucanotransferase
CF65_01982	COG0058	SHG alpha-glucan phosphorylase activity
CF65_01983	COG2909	trisaccharide binding
CF65_01985	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
CF65_01986	COG0508	dehydrogenase complex catalyzes the overall conversion of
CF65_01988	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
CF65_01991	COG0778	Nitroreductase
CF65_01992	COG0616	signal peptide processing
CF65_01994	COG0287	Prephenate dehydrogenase
CF65_01994	COG1605	Chorismate mutase
CF65_01995	COG0287	Prephenate dehydrogenase
CF65_01995	COG1605	Chorismate mutase
CF65_01996	COG1605	Chorismate mutase
CF65_01996	COG0287	Prephenate dehydrogenase
CF65_01997	COG0009	L-threonylcarbamoyladenylate synthase
CF65_01999	COG0583	DNA-binding transcription factor activity
CF65_02001	COG3099	Belongs to the UPF0263 family
CF65_02004	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
CF65_02005	COG2949	membrane
CF65_02006	COG1609	Transcriptional regulator
CF65_02008	COG3392	D12 class N6 adenine-specific DNA methyltransferase
CF65_02010	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
CF65_02011	COG0785	Cytochrome C biogenesis protein
CF65_02012	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
CF65_02012	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
CF65_02013	COG0288	reversible hydration of carbon dioxide
CF65_02014	COG2823	Periplasmic or secreted lipoprotein
CF65_02015	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
CF65_02017	COG0792	nuclease activity
CF65_02020	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
CF65_02023	COG1252	NADH dehydrogenase
CF65_02026	COG0616	signal peptide processing
CF65_02027	COG3047	cAMP biosynthetic process
CF65_02027	COG2885	chlorophyll binding
CF65_02035	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
CF65_02038	COG0291	Belongs to the bacterial ribosomal protein bL35 family
CF65_02039	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
CF65_02040	COG1943	Transposase
CF65_02042	COG3684	Belongs to the aldolase LacD family
CF65_02044	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
CF65_02045	COG3414	Phosphotransferase system galactitol-specific IIB component
CF65_02046	COG3775	system Galactitol-specific IIC component
CF65_02047	COG1063	alcohol dehydrogenase
CF65_02048	COG1349	DNA-binding transcription factor activity
CF65_02051	COG0142	geranyltranstransferase activity
CF65_02056	COG0285	dihydrofolate synthase activity
CF65_02057	COG0406	alpha-ribazole phosphatase activity
CF65_02060	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
CF65_02062	COG2431	L-lysine efflux transmembrane transporter activity
CF65_02063	COG0564	pseudouridine synthase activity
CF65_02069	COG2824	Alkylphosphonate utilization operon protein PhnA
CF65_02077	COG1538	Outer membrane efflux protein
CF65_02080	COG0577	efflux transmembrane transporter activity
CF65_02080	COG1136	(ABC) transporter
CF65_02081	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
CF65_02088	COG1523	belongs to the glycosyl hydrolase 13 family
CF65_02089	COG1523	belongs to the glycosyl hydrolase 13 family
CF65_02094	COG0058	SHG alpha-glucan phosphorylase activity
CF65_02097	COG0586	Pfam SNARE associated Golgi protein
CF65_02099	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
CF65_02101	COG1686	Belongs to the peptidase S11 family
CF65_02103	COG1686	Belongs to the peptidase S11 family
CF65_02105	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
CF65_02111	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
CF65_02112	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
CF65_02113	COG0697	spore germination
CF65_02114	COG2925	Exonuclease
CF65_02117	COG2801	Transposase and inactivated derivatives
CF65_02120	COG1528	Iron-storage protein
CF65_02121	COG1528	Iron-storage protein
CF65_02124	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
CF65_02125	COG0589	response to stress
CF65_02126	COG5266	PFAM Nickel transport complex, NikM subunit, transmembrane
CF65_02131	COG0613	PHP domain protein
CF65_02132	COG0167	dihydroorotate dehydrogenase activity
CF65_02134	COG0308	aminopeptidase N
CF65_02136	COG1448	Aminotransferase
CF65_02139	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
CF65_02140	COG1129	ABC transporter
CF65_02140	COG0842	Transport permease protein
CF65_02141	COG0842	Transport permease protein
CF65_02146	COG1120	ATPase activity
CF65_02150	COG3423	Transcriptional regulator
CF65_02152	COG1120	ATPase activity
CF65_02158	COG4774	siderophore transport
CF65_02162	COG0791	NLP P60 protein
CF65_02166	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
CF65_02171	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
CF65_02171	COG0517	IMP dehydrogenase activity
CF65_02172	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
CF65_02173	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
CF65_02175	COG0512	Glutamine amidotransferase of anthranilate synthase
CF65_02177	COG1942	4-Oxalocrotonate Tautomerase
CF65_02179	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
CF65_02181	COG3093	addiction module antidote protein HigA
CF65_02182	COG0135	phosphoribosylanthranilate isomerase activity
CF65_02182	COG0134	indole-3-glycerol-phosphate synthase activity
CF65_02184	COG0135	phosphoribosylanthranilate isomerase activity
CF65_02184	COG0134	indole-3-glycerol-phosphate synthase activity
CF65_02190	COG0298	carbon dioxide binding
CF65_02193	COG3630	sodium ion export across plasma membrane
CF65_02201	COG4771	TonB-dependent receptor
CF65_02201	COG1629	transport
CF65_02202	COG4771	TonB-dependent receptor
CF65_02202	COG1629	transport
CF65_02205	COG4221	oxidoreductase activity
CF65_02206	COG0133	tryptophan synthase activity
CF65_02210	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
CF65_02214	COG0469	pyruvate kinase activity
CF65_02219	COG1879	ABC-type sugar transport system periplasmic component
CF65_02224	COG1172	Belongs to the binding-protein-dependent transport system permease family
CF65_02228	COG2390	Transcriptional regulator
CF65_02230	COG1070	Carbohydrate kinase
CF65_02231	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
CF65_02232	COG1940	carbohydrate kinase activity
CF65_02235	COG2969	positive regulation of protein catabolic process
CF65_02237	COG0314	molybdopterin synthase activity
CF65_02239	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
CF65_02242	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
CF65_02250	COG3005	denitrification pathway
CF65_02251	COG0243	molybdopterin cofactor binding
CF65_02252	COG2315	Protein conserved in bacteria
CF65_02254	COG0471	metal ion transport
CF65_02260	COG0101	tRNA pseudouridine synthase activity
CF65_02265	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
CF65_02266	COG1074	ATP-dependent DNA helicase activity
CF65_02267	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
CF65_02269	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
CF65_02270	COG1067	ATP-dependent peptidase activity
CF65_02273	COG1278	Cold shock
CF65_02278	COG3098	single-species biofilm formation
CF65_02279	COG5595	Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310)
CF65_02280	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
CF65_02280	COG2904	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
CF65_02283	COG0745	RESPONSE REGULATOR receiver
CF65_02285	COG1840	ABC-type Fe3 transport system, periplasmic component
CF65_02288	COG3101	peptidyl-lysine hydroxylation
CF65_02289	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
CF65_02291	COG0788	formyltetrahydrofolate deformylase activity
CF65_02292	COG2916	Histone family protein nucleoid-structuring protein H-NS
CF65_02294	COG1757	Na H antiporter
CF65_02301	COG3161	chorismate lyase activity
CF65_02305	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
CF65_02306	COG1758	RNA polymerase activity
CF65_02309	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
CF65_02312	COG2867	negative regulation of translational initiation
CF65_02315	COG2850	peptidyl-arginine hydroxylation
CF65_02319	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
CF65_02320	COG1137	ATPase activity
CF65_02321	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
CF65_02323	COG3117	lipopolysaccharide transmembrane transporter activity
CF65_02324	COG1127	ABC transporter
CF65_02325	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
CF65_02326	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
CF65_02327	COG2854	intermembrane phospholipid transfer
CF65_02328	COG3113	response to antibiotic
CF65_02329	COG5007	Belongs to the BolA IbaG family
CF65_02332	COG0463	Glycosyl transferase, family 2
CF65_02333	COG3691	Protein conserved in bacteria
CF65_02335	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
CF65_02338	COG0861	Integral membrane protein TerC family
CF65_02342	COG2801	Transposase and inactivated derivatives
CF65_02348	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
CF65_02349	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
CF65_02352	COG1174	glycine betaine transport
CF65_02353	COG0517	IMP dehydrogenase activity
CF65_02353	COG1125	glycine betaine transport
CF65_02354	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
CF65_02357	COG0460	homoserine dehydrogenase
CF65_02357	COG0527	aspartate kinase activity
CF65_02360	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
CF65_02362	COG2091	lysine biosynthetic process via aminoadipic acid
CF65_02363	COG0330	HflC and HflK could
CF65_02365	COG0330	HflC and HflK could
CF65_02367	COG1555	photosystem II stabilization
CF65_02368	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
CF65_02371	COG0635	Involved in the biosynthesis of porphyrin-containing compound
CF65_02374	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
CF65_02375	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
CF65_02381	COG0800	Aldolase
CF65_02383	COG1028	Short-chain dehydrogenase reductase Sdr
CF65_02384	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
CF65_02389	COG2186	Transcriptional regulator
CF65_02393	COG0659	secondary active sulfate transmembrane transporter activity
CF65_02395	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
CF65_02397	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
CF65_02399	COG0828	Belongs to the bacterial ribosomal protein bS21 family
CF65_02402	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
CF65_02410	COG3115	cell septum assembly
CF65_02412	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
CF65_02416	COG1573	uracil-dna glycosylase
CF65_02417	COG0012	GTP binding
CF65_02418	COG0193	aminoacyl-tRNA hydrolase activity
CF65_02420	COG2801	Transposase and inactivated derivatives
CF65_02423	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
CF65_02425	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
CF65_02429	COG0024	Methionine aminopeptidase
CF65_02430	COG0316	Belongs to the HesB IscA family
CF65_02432	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
CF65_02434	COG0672	)-iron permease
CF65_02438	COG0577	efflux transmembrane transporter activity
CF65_02440	COG0577	efflux transmembrane transporter activity
CF65_02440	COG1136	(ABC) transporter
CF65_02442	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
CF65_02446	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
CF65_02450	COG3385	transposase activity
CF65_02454	COG1643	Atp-dependent helicase
CF65_02455	COG2363	Small membrane protein
CF65_02459	COG0277	FAD linked oxidase domain protein
CF65_02459	COG0247	lactate metabolic process
CF65_02462	COG2077	Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides
CF65_02463	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
CF65_02465	COG0363	glucosamine-6-phosphate deaminase activity
CF65_02466	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
CF65_02468	COG1737	Transcriptional regulator
CF65_02472	COG3010	Converts N-acetylmannosamine-6-phosphate (ManNAc-6-P) to N-acetylglucosamine-6-phosphate (GlcNAc-6-P)
CF65_02473	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
CF65_02476	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
CF65_02477	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
CF65_02477	COG1263	PTS System
CF65_02478	COG2190	(PTS) system
CF65_02478	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
CF65_02478	COG1263	PTS System
CF65_02481	COG2215	Belongs to the NiCoT transporter (TC 2.A.52) family
CF65_02482	COG3683	transport system, periplasmic component
CF65_02484	COG0488	(ABC) transporter
CF65_02486	COG0187	DNA topoisomerase II activity
CF65_02491	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
CF65_02492	COG0625	glutathione transferase activity
CF65_02493	COG0790	COG0790 FOG TPR repeat, SEL1 subfamily
CF65_02495	COG0251	oxidation-reduction process
CF65_02499	COG0463	Glycosyl transferase, family 2
CF65_02501	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
CF65_02504	COG1560	Kdo2-lipid A biosynthetic process
CF65_02506	COG0730	response to heat
CF65_02507	COG3770	Murein endopeptidase that cleaves the D-alanyl-meso-2,6- diamino-pimelyl amide bond that connects peptidoglycan strands. Likely plays a role in the removal of murein from the sacculus
CF65_02509	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
CF65_02511	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
CF65_02511	COG3264	Mechanosensitive ion channel
CF65_02512	COG0318	PFAM AMP-dependent synthetase and ligase
CF65_02513	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
CF65_02514	COG0596	Alpha beta hydrolase
CF65_02515	COG0716	FMN binding
CF65_02516	COG0735	belongs to the Fur family
CF65_02519	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
CF65_02521	COG3094	Invasion gene expression up-regulator, SirB
CF65_02523	COG0023	Translation Initiation Factor
CF65_02525	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
CF65_02526	COG3771	Involved in the assembly of lipopolysaccharide (LPS)
CF65_02527	COG0776	regulation of translation
CF65_02528	COG0539	negative regulation of cytoplasmic translation
CF65_02531	COG2990	Protein conserved in bacteria
CF65_02532	COG4771	TonB-dependent receptor
CF65_02533	COG0612	Peptidase, M16
CF65_02534	COG0612	Peptidase, M16
CF65_02536	COG1687	branched-chain amino acid
CF65_02538	COG1296	Branched-chain amino acid permease (Azaleucine resistance)
CF65_02539	COG0583	DNA-binding transcription factor activity
CF65_02543	COG4804	nuclease activity
CF65_02544	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
CF65_02548	COG2920	part of a sulfur-relay system
CF65_02550	COG1121	(ABC) transporter
CF65_02551	COG1108	ABC-type Mn2 Zn2 transport systems permease components
CF65_02552	COG1108	ABC-type Mn2 Zn2 transport systems permease components
CF65_02556	COG1803	Methylglyoxal synthase
CF65_02558	COG3304	Inner membrane component domain
CF65_02560	COG1289	transmembrane transporter activity
CF65_02563	COG3958	Transketolase
CF65_02575	COG1346	cytolysis
CF65_02577	COG1525	nuclease
CF65_02579	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
CF65_02581	COG2166	iron-sulfur cluster assembly
CF65_02584	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
CF65_02584	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
CF65_02586	COG1560	Kdo2-lipid A biosynthetic process
CF65_02587	COG3381	protein complex oligomerization
CF65_02589	COG2249	NAD(P)H dehydrogenase (quinone) activity
CF65_02591	COG0330	HflC and HflK could
CF65_02595	COG1858	cytochrome C peroxidase
CF65_02597	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
CF65_02598	COG0318	PFAM AMP-dependent synthetase and ligase
CF65_02599	COG3065	identical protein binding
CF65_02600	COG1214	PFAM Peptidase M22, glycoprotease
CF65_02601	COG1199	ATP-dependent helicase activity
CF65_02602	COG0676	glucose-6-phosphate 1-epimerase activity
CF65_02603	COG3118	belongs to the thioredoxin family
CF65_02604	COG0492	ferredoxin-NADP+ reductase activity
CF65_02606	COG4988	ABC transporter
CF65_02609	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
CF65_02610	COG1946	Acyl-CoA thioesterase
CF65_02613	COG0515	serine threonine protein kinase
CF65_02616	COG1940	carbohydrate kinase activity
CF65_02618	COG0671	phosphoesterase, PA-phosphatase related
CF65_02619	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
CF65_02623	COG1088	dTDP-glucose 4,6-dehydratase activity
CF65_02626	COG3076	Globally modulates RNA abundance by binding to RNase E (Rne) and regulating its endonucleolytic activity. Can modulate Rne action in a substrate-dependent manner by altering the composition of the degradosome
CF65_02628	COG0708	Exodeoxyribonuclease III
CF65_02636	COG1216	Glycosyl transferase, family 2
CF65_02640	COG0463	Glycosyl transferase, family 2
CF65_02648	COG2951	lytic endotransglycosylase activity
CF65_02649	COG1216	Glycosyl transferase, family 2
CF65_02651	COG1216	Glycosyl transferase, family 2
CF65_02654	COG3306	glycosyltransferase involved in LPS biosynthesis
CF65_02656	COG5039	Polysaccharide pyruvyl transferase
CF65_02657	COG2161	toxin-antitoxin pair type II binding
CF65_02658	COG4115	mRNA cleavage
CF65_02659	COG1434	Gram-negative-bacterium-type cell wall biogenesis
CF65_02663	COG1793	dna ligase
CF65_02666	COG0210	DNA helicase
CF65_02668	COG2610	gluconate transmembrane transporter activity
CF65_02671	COG3265	gluconokinase activity
CF65_02673	COG1609	Transcriptional regulator
CF65_02674	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
CF65_02677	COG0437	4 iron, 4 sulfur cluster binding
CF65_02678	COG2864	formate dehydrogenase
CF65_02679	COG2864	formate dehydrogenase
CF65_02682	COG0068	Along with HypE, it catalyzes the synthesis of the CN ligands of the active site iron of NiFe -hydrogenases using carbamoylphosphate as a substrate. It functions as a carbamoyl transferase using carbamoylphosphate as a substrate and transferring the carboxamido moiety in an ATP-dependent reaction to the thiolate of the C-terminal cysteine of HypE yielding a protein-S-carboxamide
CF65_02683	COG1142	4fe-4S ferredoxin, iron-sulfur binding domain protein
CF65_02684	COG0651	ATP synthesis coupled electron transport
CF65_02686	COG0650	Formate hydrogenlyase subunit 4
CF65_02687	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
CF65_02688	COG4237	Hydrogenase 4 membrane
CF65_02689	COG0651	ATP synthesis coupled electron transport
CF65_02692	COG3262	NADH dehydrogenase (ubiquinone), 30 kDa subunit
CF65_02692	COG3261	NADH dehydrogenase
CF65_02693	COG1143	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
CF65_02695	COG3260	NADH ubiquinone oxidoreductase 20
CF65_02697	COG0680	Initiates the rapid degradation of small, acid-soluble proteins during spore germination
CF65_02698	COG3383	formate dehydrogenase (NAD+) activity
CF65_02699	COG3383	formate dehydrogenase (NAD+) activity
CF65_02700	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
CF65_02704	COG0508	dehydrogenase complex catalyzes the overall conversion of
CF65_02706	COG0567	Dehydrogenase, E1 component
CF65_02708	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
CF65_02710	COG3108	Peptidase M15
CF65_02711	COG2989	Protein conserved in bacteria
CF65_02712	COG0793	Belongs to the peptidase S41A family
CF65_02714	COG2995	paraquat-inducible protein a
CF65_02715	COG3008	intermembrane lipid transfer
CF65_02718	COG3842	ATPase activity
CF65_02719	COG1176	ABC-type spermidine putrescine transport system, permease component I
CF65_02720	COG1177	transmembrane transport
CF65_02721	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
CF65_02726	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
CF65_02728	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
CF65_02734	COG1522	sequence-specific DNA binding
CF65_02735	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
CF65_02736	COG3025	triphosphatase activity
CF65_02737	COG1392	Phosphate transport regulator
CF65_02738	COG0306	phosphate transporter
CF65_02740	COG4991	sh3 domain protein
CF65_02742	COG0617	tRNA 3'-terminal CCA addition
CF65_02743	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
CF65_02745	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
CF65_02751	COG1620	l-lactate permease
CF65_02758	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
CF65_02762	COG0328	RNA-DNA hybrid ribonuclease activity
CF65_02763	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
CF65_02776	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
CF65_02779	COG1862	Preprotein translocase
CF65_02780	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
CF65_02781	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
CF65_02784	COG1012	belongs to the aldehyde dehydrogenase family
CF65_02784	COG1454	alcohol dehydrogenase
CF65_02785	COG1172	Belongs to the binding-protein-dependent transport system permease family
CF65_02786	COG1129	ABC transporter
CF65_02787	COG1879	ABC-type sugar transport system periplasmic component
CF65_02789	COG0673	inositol 2-dehydrogenase activity
CF65_02792	COG2271	Major facilitator Superfamily
CF65_02794	COG3718	enzyme involved in inositol metabolism
CF65_02797	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
CF65_02800	COG3962	Belongs to the TPP enzyme family
CF65_02802	COG0673	inositol 2-dehydrogenase activity
CF65_02803	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
CF65_02805	COG2274	protein secretion by the type I secretion system
CF65_02806	COG2931	calcium- and calmodulin-responsive adenylate cyclase activity
CF65_02807	COG2994	toxin metabolic process
CF65_02810	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
CF65_02818	COG2813	Specifically methylates the guanine in position
CF65_02819	COG3050	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. The exact function of the psi subunit is
CF65_02821	COG0456	acetyltransferase
CF65_02823	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
CF65_02826	COG4795	General secretion pathway protein
CF65_02827	COG2165	general secretion pathway protein
CF65_02832	COG3064	Membrane
CF65_02834	COG0848	biopolymer transport protein
CF65_02836	COG0811	peptide transport
CF65_02837	COG0824	Thioesterase
CF65_02840	COG1294	oxidase, subunit
CF65_02841	COG1271	oxidase subunit
CF65_02844	COG2255	four-way junction helicase activity
CF65_02847	COG0641	radical SAM
CF65_02848	COG0217	transcriptional regulatory protein
CF65_02850	COG0494	nUDIX hydrolase
CF65_02856	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)
CF65_02857	COG1755	Isoprenylcysteine carboxyl methyltransferase
CF65_02864	COG2271	Major facilitator Superfamily
CF65_02866	COG0346	lactoylglutathione lyase activity
CF65_02867	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
CF65_02870	COG2056	Na+-H+ antiporter family
CF65_02875	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
CF65_02878	COG1636	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)
CF65_02879	COG0142	geranyltranstransferase activity
CF65_02883	COG0697	spore germination
CF65_02885	COG0697	spore germination
CF65_02886	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
CF65_02891	COG4166	transmembrane transport
CF65_02892	COG4166	transmembrane transport
CF65_02893	COG0601	transmembrane transport
CF65_02895	COG0601	transmembrane transport
CF65_02897	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
CF65_02898	COG0444	Belongs to the ABC transporter superfamily
CF65_02899	COG4608	Belongs to the ABC transporter superfamily
CF65_02902	COG0745	RESPONSE REGULATOR receiver
CF65_02903	COG0257	Belongs to the bacterial ribosomal protein bL36 family
CF65_02905	COG1611	Belongs to the LOG family
CF65_02909	COG2259	Doxx family
CF65_02910	COG1530	ribonuclease E activity
CF65_02916	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
CF65_02917	COG0626	cystathionine gamma-synthase activity
CF65_02919	COG3451	type IV secretory pathway VirB4
CF65_02921	COG2184	nucleotidyltransferase activity
CF65_02925	COG2860	membrane
CF65_02931	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
CF65_02932	COG2821	murein-degrading enzyme. may play a role in recycling of muropeptides during cell elongation and or cell division
CF65_02933	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
CF65_02935	COG4531	ABC-type Zn2 transport system, periplasmic component surface adhesin
CF65_02936	COG2503	HAD superfamily, subfamily IIIB (Acid phosphatase)
CF65_02939	COG0560	Phosphoserine phosphatase
CF65_02946	COG0728	peptidoglycan biosynthetic process
CF65_02947	COG0196	riboflavin kinase activity
CF65_02952	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
CF65_02955	COG0544	peptidyl-prolyl cis-trans isomerase activity
CF65_02956	COG4974	Belongs to the 'phage' integrase family
CF65_02958	COG2814	Major facilitator Superfamily
CF65_02959	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
CF65_02961	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
CF65_02964	COG3266	domain, Protein
CF65_02964	COG3061	Opacity-associated protein A
CF65_02966	COG1509	lysine 2,3-aminomutase activity
CF65_02970	COG3033	Beta-eliminating lyase
CF65_02973	COG0814	amino acid
CF65_02974	COG2964	Protein conserved in bacteria
CF65_02975	COG5413	integral membrane protein
CF65_02977	COG0204	Acyl-transferase
CF65_02980	COG0697	spore germination
CF65_02982	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
CF65_02983	COG1882	Formate acetyltransferase
CF65_02984	COG2116	formate transmembrane transporter activity
CF65_02987	COG0537	adenosine 5'-monophosphoramidase activity
CF65_02996	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
CF65_02999	COG3022	response to hydroperoxide
CF65_03000	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
CF65_03004	COG0681	Belongs to the peptidase S26 family
CF65_03014	COG0230	Belongs to the bacterial ribosomal protein bL34 family