locus-tag	class	description
TP_0001	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
TP_0002	COG0592	DNA-directed DNA polymerase activity
TP_0003	COG1195	it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP
TP_0004	COG5512	Zn-ribbon-containing possibly RNA-binding protein and truncated derivatives
TP_0005	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
TP_0007	COG1609	Transcriptional regulator
TP_0013	COG1609	Transcriptional regulator
TP_0015	COG0072	phenylalanine-tRNA ligase activity
TP_0016	COG1067	ATP-dependent peptidase activity
TP_0018	COG1747	RNA polymerase binding
TP_0018	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
TP_0023	COG0733	neurotransmitter:sodium symporter activity
TP_0026	COG1536	FliG is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
TP_0028	COG1253	flavin adenine dinucleotide binding
TP_0029	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
TP_0030	COG0459	protein refolding
TP_0032	COG1385	rRNA (uridine-N3-)-methyltransferase activity
TP_0034	COG0803	Belongs to the bacterial solute-binding protein 9 family
TP_0035	COG1121	(ABC) transporter
TP_0036	COG1108	ABC-type Mn2 Zn2 transport systems permease components
TP_0037	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
TP_0042	COG1652	LysM domain
TP_0044	COG0445	tRNA wobble uridine modification
TP_0045	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
TP_0046	COG1774	PSP1 C-terminal conserved region
TP_0049	COG0739	heme binding
TP_0051	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
TP_0052	COG2890	protein-(glutamine-N5) methyltransferase activity
TP_0053	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
TP_0055	COG3630	sodium ion export across plasma membrane
TP_0057	COG1883	Na -transporting methylmalonyl-CoA oxaloacetate decarboxylase, beta subunit
TP_0058	COG0305	Participates in initiation and elongation during chromosome replication
TP_0060	COG0359	binds to the 23S rRNA
TP_0061	COG0238	Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
TP_0062	COG0629	single-stranded DNA binding
TP_0063	COG0360	Binds together with S18 to 16S ribosomal RNA
TP_0068	COG0820	rRNA (adenine-C2-)-methyltransferase activity
TP_0071	COG0542	response to heat
TP_0073	COG1639	'signal transduction protein
TP_0076	COG0395	ABC-type sugar transport system, permease component
TP_0078	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
TP_0081	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
TP_0082	COG3604	Transcriptional regulator
TP_0085	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
TP_0085	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
TP_0085	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
TP_0089	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
TP_0090	COG0812	UDP-N-acetylmuramate dehydrogenase activity
TP_0091	COG0215	cysteine-tRNA ligase activity
TP_0094	COG0280	phosphate acetyltransferase
TP_0095	COG0457	Tetratricopeptide repeat
TP_0097	COG0361	One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre- initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initation complex
TP_0098	COG0484	heat shock protein binding
TP_0100	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
TP_0101	COG0785	Cytochrome C biogenesis protein
TP_0104	COG0737	Belongs to the 5'-nucleotidase family
TP_0105	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
TP_0105	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
TP_0105	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
TP_0107	COG1213	nucleotidyl transferase
TP_0108	COG0205	6-phosphofructokinase activity
TP_0111	COG1508	bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding
TP_0112	COG3579	cysteine-type endopeptidase activity
TP_0113	COG0330	HflC and HflK could
TP_0114	COG0330	HflC and HflK could
TP_0115	COG0351	phosphomethylpyrimidine kinase
TP_0116	COG0556	nucleotide-excision repair
TP_0119	COG2011	ABC-type metal ion transport system permease component
TP_0120	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
TP_0121	COG1509	lysine 2,3-aminomutase activity
TP_0122	COG1274	phosphoenolpyruvate carboxykinase (GTP) activity
TP_0123	COG0457	Tetratricopeptide repeat
TP_0124	COG0012	GTP binding
TP_0125	COG0708	Exodeoxyribonuclease III
TP_0139	COG0569	domain protein
TP_0140	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
TP_0141	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
TP_0145	COG1022	Amp-dependent synthetase and ligase
TP_0147	COG1449	Belongs to the glycosyl hydrolase 57 family
TP_0153	COG1963	PFAM Acid phosphatase vanadium-dependent haloperoxidase related
TP_0160	COG0442	prolyl-tRNA aminoacylation
TP_0162	COG2255	four-way junction helicase activity
TP_0163	COG0803	Belongs to the bacterial solute-binding protein 9 family
TP_0164	COG1121	(ABC) transporter
TP_0165	COG1108	ABC-type Mn2 Zn2 transport systems permease components
TP_0166	COG1108	ABC-type Mn2 Zn2 transport systems permease components
TP_0168	COG0588	phosphoglycerate mutase activity
TP_0170	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
TP_0171	COG4939	FMN-binding domain protein
TP_0173	COG2199	diguanylate cyclase activity
TP_0175	COG2604	Protein of unknown function DUF115
TP_0181	COG2919	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic
TP_0184	COG0691	Required for rescue of stalled ribosomes mediated by trans-translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene
TP_0186	COG0635	Involved in the biosynthesis of porphyrin-containing compound
TP_0187	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
TP_0188	COG0051	transcription antitermination factor activity, RNA binding
TP_0189	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
TP_0190	COG0088	Forms part of the polypeptide exit tunnel
TP_0191	COG0089	rRNA binding
TP_0192	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
TP_0193	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
TP_0194	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
TP_0195	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
TP_0196	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
TP_0197	COG0255	Belongs to the universal ribosomal protein uL29 family
TP_0198	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
TP_0199	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
TP_0200	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
TP_0201	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
TP_0202	COG0199	Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site
TP_0203	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
TP_0204	COG0097	This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7 L12 stalk, and near the tRNA binding site of the peptidyltransferase center
TP_0205	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
TP_0206	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
TP_0207	COG0200	Binds to the 23S rRNA
TP_0210	COG0099	Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits
TP_0211	COG0100	Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome
TP_0212	COG0202	RNA polymerase activity
TP_0213	COG0203	ribosomal protein L17
TP_0215	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
TP_0216	COG0443	Heat shock 70 kDa protein
TP_0220	COG1366	Belongs to the anti-sigma-factor antagonist family
TP_0227	COG1122	ATPase activity
TP_0228	COG1268	BioY protein
TP_0229	COG1573	uracil-dna glycosylase
TP_0230	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
TP_0231	COG0564	pseudouridine synthase activity
TP_0234	COG0267	Belongs to the bacterial ribosomal protein bL33 family
TP_0235	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
TP_0236	COG0250	Participates in transcription elongation, termination and antitermination
TP_0237	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
TP_0238	COG0081	regulation of translation
TP_0239	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
TP_0240	COG0222	ribosome binding
TP_0241	COG0085	RNA polymerase activity
TP_0242	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
TP_0242	COG0739	heme binding
TP_0243	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
TP_0244	COG0049	tRNA binding
TP_0245	COG0714	Associated with various cellular activities
TP_0246	COG2304	oxidoreductase activity
TP_0247	COG0860	N-Acetylmuramoyl-L-alanine amidase
TP_0251	COG0776	regulation of translation
TP_0252	COG0815	Transfers the fatty acyl group on membrane lipoproteins
TP_0254	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
TP_0255	COG0254	rRNA binding
TP_0256	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
TP_0257	COG0584	glycerophosphoryl diester phosphodiesterase
TP_0262	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
TP_0264	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
TP_0265	COG1114	Component of the transport system for branched-chain amino acids
TP_0269	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
TP_0270	COG0617	tRNA 3'-terminal CCA addition
TP_0271	COG1475	DNA binding
TP_0272	COG1192	Involved in chromosome partitioning
TP_0277	COG0793	Belongs to the peptidase S41A family
TP_0282	COG1729	Mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division
TP_0283	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
TP_0285	COG0731	radical SAM domain protein
TP_0288	COG1861	Spore coat polysaccharide biosynthesis protein F CMP-KDO synthetase
TP_0290	COG0561	phosphatase activity
TP_0292	COG2885	chlorophyll binding
TP_0294	COG0462	Involved in the biosynthesis of the central metabolite phospho-alpha-D-ribosyl-1-pyrophosphate (PRPP) via the transfer of pyrophosphoryl group from ATP to 1-hydroxyl of ribose-5-phosphate (Rib-5-P)
TP_0296	COG0237	dephospho-CoA kinase activity
TP_0298	COG1744	ABC transporter substrate-binding protein PnrA-like
TP_0299	COG3845	ABC transporter
TP_0300	COG3845	ABC transporter
TP_0301	COG4603	Belongs to the binding-protein-dependent transport system permease family
TP_0302	COG1079	Belongs to the binding-protein-dependent transport system permease family
TP_0303	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
TP_0304	COG0823	Involved in the tonB-independent uptake of proteins
TP_0305	COG0504	CTP synthase activity
TP_0306	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
TP_0319	COG1744	ABC transporter substrate-binding protein PnrA-like
TP_0324	COG2911	Protein conserved in bacteria
TP_0326	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
TP_0328	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
TP_0329	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
TP_0331	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
TP_0337	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
TP_0340	COG0285	dihydrofolate synthase activity
TP_0341	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
TP_0342	COG1102	Psort location Cytoplasmic, score
TP_0345	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
TP_0349	COG1047	Peptidyl-prolyl cis-trans
TP_0350	COG0014	Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate
TP_0351	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
TP_0352	COG4443	Transcriptional Coactivator p15 (PC4)
TP_0353	COG0328	RNA-DNA hybrid ribonuclease activity
TP_0354	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
TP_0357	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
TP_0357	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
TP_0358	COG1543	Belongs to the glycosyl hydrolase 57 family
TP_0359	COG3330	Domain of unknown function (DUF4912)
TP_0362	COG0227	Belongs to the bacterial ribosomal protein bL28 family
TP_0363	COG0643	Histidine kinase
TP_0363	COG2198	Histidine kinase
TP_0364	COG0835	chemotaxis
TP_0366	COG2201	protein-glutamate methylesterase activity
TP_0367	COG1196	nuclear chromosome segregation
TP_0369	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
TP_0371	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
TP_0372	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
TP_0373	COG0037	tRNA processing
TP_0374	COG0457	Tetratricopeptide repeat
TP_0379	COG0653	protein targeting
TP_0381	COG5522	Integral membrane protein (intg_mem_TP0381)
TP_0383	COG2001	Belongs to the MraZ family
TP_0384	COG0275	rRNA processing
TP_0386	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
TP_0388	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
TP_0390	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
TP_0391	COG4974	Belongs to the 'phage' integrase family
TP_0393	COG0758	DNA mediated transformation
TP_0394	COG0551	DNA topoisomerase type I activity
TP_0394	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
TP_0395	COG4974	Belongs to the 'phage' integrase family
TP_0396	COG1815	bacterial-type flagellum-dependent cell motility
TP_0398	COG1677	Flagellar hook-basal body complex protein FliE
TP_0399	COG1766	The M ring may be actively involved in energy transduction
TP_0401	COG1317	bacterial-type flagellum organization
TP_0402	COG1157	protein secretion by the type III secretion system
TP_0404	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
TP_0406	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
TP_0410	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
TP_0411	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
TP_0414	COG1115	amino acid carrier protein
TP_0416	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
TP_0417	COG0815	Transfers the fatty acyl group on membrane lipoproteins
TP_0418	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
TP_0419	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
TP_0424	COG1390	Produces ATP from ADP in the presence of a proton gradient across the membrane
TP_0426	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
TP_0427	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
TP_0428	COG1394	ATPase activity, coupled to movement of substances
TP_0429	COG1269	ATP hydrolysis coupled proton transport
TP_0431	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
TP_0435	COG3015	lipoprotein NlpE involved in copper resistance
TP_0436	COG1227	inorganic diphosphatase activity
TP_0438	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
TP_0439	COG0835	chemotaxis
TP_0441	COG0061	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP
TP_0442	COG0497	DNA recombination
TP_0446	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
TP_0447	COG3118	belongs to the thioredoxin family
TP_0448	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
TP_0449	COG0457	Tetratricopeptide repeat
TP_0450	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
TP_0452	COG0060	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)
TP_0454	COG3706	GGDEF domain
TP_0458	COG1386	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpA that pull DNA away from mid-cell into both cell halves
TP_0464	COG0220	tRNA (guanine-N7-)-methyltransferase activity
TP_0472	COG0322	excinuclease ABC activity
TP_0474	COG0217	transcriptional regulatory protein
TP_0475	COG0166	Belongs to the GPI family
TP_0476	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
TP_0477	COG0363	glucosamine-6-phosphate deaminase activity
TP_0478	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
TP_0480	COG3216	Uncharacterized protein conserved in bacteria (DUF2062)
TP_0481	COG2982	Protein involved in outer membrane biogenesis
TP_0484	COG4254	PFAM FecR protein
TP_0487	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
TP_0488	COG0840	transmembrane signaling receptor activity
TP_0491	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
TP_0492	COG0358	DNA primase activity
TP_0493	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
TP_0497	COG1077	Cell shape determining protein MreB Mrl
TP_0500	COG0768	penicillin binding
TP_0501	COG0772	Belongs to the SEDS family
TP_0502	COG0666	response to abiotic stimulus
TP_0506	COG0544	peptidyl-prolyl cis-trans isomerase activity
TP_0507	COG0740	serine-type endopeptidase activity
TP_0508	COG1219	ATP-dependent specificity component of the Clp protease. It directs the protease to specific substrates. Can perform chaperone functions in the absence of ClpP
TP_0509	COG0450	alkyl hydroperoxide reductase
TP_0510	COG0481	GTPase activity
TP_0511	COG1329	Transcriptional regulator
TP_0512	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
TP_0512	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
TP_0514	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
TP_0516	COG0728	peptidoglycan biosynthetic process
TP_0517	COG0817	Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group
TP_0519	COG2204	response regulator
TP_0521	COG0470	DNA polymerase III
TP_0522	COG1286	toxin biosynthetic process
TP_0523	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)
TP_0524	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
TP_0525	COG0231	Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase
TP_0527	COG1394	ATPase activity, coupled to movement of substances
TP_0528	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
TP_0529	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
TP_0533	COG1269	ATP hydrolysis coupled proton transport
TP_0534	COG1527	subunit (C
TP_0536	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
TP_0537	COG0149	triose-phosphate isomerase activity
TP_0538	COG0126	phosphoglycerate kinase activity
TP_0540	COG1366	Belongs to the anti-sigma-factor antagonist family
TP_0541	COG1159	An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism
TP_0542	COG0205	6-phosphofructokinase activity
TP_0543	COG0632	four-way junction helicase activity
TP_0546	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
TP_0547	COG0761	Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis
TP_0550	COG0486	Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34
TP_0553	COG0628	permease
TP_0554	COG0546	phosphoglycolate phosphatase activity
TP_0556	COG2502	aspartate--ammonia ligase
TP_0559	COG0301	tRNA thio-modification
TP_0560	COG0021	Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate
TP_0561	COG1512	COG1512 Beta-propeller domains of methanol dehydrogenase type
TP_0562	COG2089	acid synthase
TP_0568	COG0800	Aldolase
TP_0569	COG0006	proline dipeptidase activity
TP_0572	COG3976	FMN-binding domain protein
TP_0572	COG2717	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. MsrQ provides electrons for reduction to the reductase catalytic subunit MsrP, using the quinone pool of the respiratory chain
TP_0576	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
TP_0578	COG0552	protein localization to endoplasmic reticulum
TP_0580	COG4591	ABC-type transport system involved in lipoprotein release permease component
TP_0581	COG1136	(ABC) transporter
TP_0585	COG4166	transmembrane transport
TP_0586	COG0495	leucyl-tRNA aminoacylation
TP_0587	COG1466	dna polymerase III delta subunit
TP_0589	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
TP_0591	COG1493	Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr). The two antagonistic activities of HprK P are regulated by several intracellular metabolites, which change their concentration in response to the absence or presence of rapidly metabolisable carbon sources (glucose, fructose, etc.) in the growth medium. Therefore, by controlling the phosphorylation state of HPr, HPrK P is a sensor enzyme that plays a major role in the regulation of carbon metabolism and sugar transport it mediates carbon catabolite repression (CCR), and regulates PTS-catalyzed carbohydrate uptake and inducer exclusion
TP_0593	COG3064	Membrane
TP_0595	COG0563	adenylate kinase activity
TP_0596	COG0617	tRNA 3'-terminal CCA addition
TP_0600	COG0750	zinc metalloprotease
TP_0601	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
TP_0602	COG0575	Belongs to the CDS family
TP_0603	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
TP_0604	COG0233	cytoplasmic translational termination
TP_0605	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
TP_0606	COG0052	Belongs to the universal ribosomal protein uS2 family
TP_0608	COG1413	lyase activity
TP_0609	COG0017	Asparaginyl-tRNA synthetase
TP_0612	COG0719	Fe-S assembly protein
TP_0613	COG0719	Fe-S assembly protein
TP_0614	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
TP_0616	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
TP_0623	COG1388	LysM domain
TP_0623	COG0741	lytic transglycosylase activity
TP_0626	COG0420	3'-5' exonuclease activity
TP_0627	COG0419	ATPase involved in DNA repair
TP_0628	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
TP_0631	COG2201	protein-glutamate methylesterase activity
TP_0632	COG0180	Tryptophanyl-tRNA synthetase
TP_0633	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
TP_0633	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
TP_0634	COG0272	DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA
TP_0637	COG0324	Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A)
TP_0639	COG3290	protein histidine kinase activity
TP_0639	COG0840	transmembrane signaling receptor activity
TP_0640	COG0840	transmembrane signaling receptor activity
TP_0641	COG0124	histidyl-tRNA synthetase
TP_0642	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
TP_0643	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
TP_0644	COG1384	Belongs to the class-I aminoacyl-tRNA synthetase family
TP_0647	COG0172	Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec)
TP_0650	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
TP_0651	COG1480	7TM receptor with intracellular HD hydrolase
TP_0652	COG3842	ATPase activity
TP_0653	COG1176	ABC-type spermidine putrescine transport system, permease component I
TP_0654	COG1177	transmembrane transport
TP_0657	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
TP_0658	COG1699	Binds to the C-terminal region of flagellin, which is implicated in polymerization, and participates in the assembly of the flagellum
TP_0662	COG0191	fructose-bisphosphate aldolase activity
TP_0667	COG0572	uridine kinase
TP_0669	COG0587	DNA-directed DNA polymerase activity
TP_0670	COG1181	Belongs to the D-alanine--D-alanine ligase family
TP_0672	COG0423	glycine-tRNA ligase activity
TP_0673	COG0008	Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu)
TP_0674	COG2840	Smr protein MutS2
TP_0675	COG3735	TraB family
TP_0678	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
TP_0680	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
TP_0681	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
TP_0682	COG0293	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit
TP_0683	COG0142	geranyltranstransferase activity
TP_0684	COG1879	ABC-type sugar transport system periplasmic component
TP_0685	COG1129	ABC transporter
TP_0686	COG4211	Belongs to the binding-protein-dependent transport system permease family
TP_0687	COG1200	Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y-DNA)
TP_0688	COG1619	proteins homologs of microcin C7 resistance protein MccF
TP_0689	COG1160	GTP binding
TP_0692	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
TP_0695	COG0151	Belongs to the GarS family
TP_0702	COG0739	heme binding
TP_0703	COG0739	heme binding
TP_0704	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
TP_0704	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
TP_0706	COG0741	lytic transglycosylase activity
TP_0706	COG0739	heme binding
TP_0706	COG1196	nuclear chromosome segregation
TP_0709	COG1191	sigma factor activity
TP_0712	COG0455	bacterial-type flagellum organization
TP_0713	COG1419	protein localization to endoplasmic reticulum
TP_0714	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
TP_0715	COG1377	Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
TP_0716	COG1684	flagellar biosynthetic protein fliR
TP_0717	COG1987	bacterial-type flagellum assembly
TP_0718	COG1338	Plays a role in the flagellum-specific transport system
TP_0720	COG1776	CheC inhibitor of MCP methylation
TP_0720	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
TP_0721	COG1868	FliM is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
TP_0722	COG1580	Controls the rotational direction of flagella during chemotaxis
TP_0724	COG1360	Flagellar Motor Protein
TP_0725	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
TP_0727	COG1749	Flagellar hook protein flgE
TP_0728	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
TP_0732	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
TP_0734	COG0813	purine-nucleoside phosphorylase activity
TP_0735	COG0493	'glutamate synthase
TP_0736	COG0543	2 iron, 2 sulfur cluster binding
TP_0738	COG0799	negative regulation of ribosome biogenesis
TP_0741	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
TP_0742	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
TP_0743	COG0211	Belongs to the bacterial ribosomal protein bL27 family
TP_0745	COG0261	This protein binds to 23S rRNA in the presence of protein L20
TP_0746	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)
TP_0746	COG0574	Belongs to the PEP-utilizing enzyme family
TP_0750	COG2304	oxidoreductase activity
TP_0754	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
TP_0755	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)
TP_0755	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
TP_0755	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
TP_0756	COG0223	Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus
TP_0757	COG0242	peptide deformylase activity
TP_0758	COG0828	Belongs to the bacterial ribosomal protein bS21 family
TP_0760	COG0768	penicillin binding
TP_0761	COG2604	Protein of unknown function DUF115
TP_0762	COG2604	Protein of unknown function DUF115
TP_0765	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
TP_0767	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
TP_0769	COG1652	LysM domain
TP_0773	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
TP_0774	COG1285	pathogenesis
TP_0775	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
TP_0778	COG3956	TIGRFAM MazG family protein
TP_0780	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
TP_0780	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
TP_0781	COG0739	heme binding
TP_0786	COG1137	ATPase activity
TP_0789	COG2834	Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane)
TP_0792	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
TP_0794	COG0192	Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme
TP_0796	COG1477	protein flavinylation
TP_0797	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
TP_0798	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
TP_0798	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
TP_0800	COG1686	Belongs to the peptidase S11 family
TP_0801	COG0542	response to heat
TP_0804	COG3842	ATPase activity
TP_0805	COG0557	exoribonuclease II activity
TP_0807	COG0333	Belongs to the bacterial ribosomal protein bL32 family
TP_0808	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
TP_0809	COG0571	ribonuclease III activity
TP_0810	COG0338	D12 class N6 adenine-specific DNA methyltransferase
TP_0814	COG0492	ferredoxin-NADP+ reductase activity
TP_0817	COG0148	phosphopyruvate hydratase activity
TP_0819	COG1234	tRNA 3'-trailer cleavage
TP_0821	COG1464	Belongs to the NlpA lipoprotein family
TP_0822	COG0668	transmembrane transport
TP_0823	COG2033	superoxide reductase activity
TP_0824	COG1154	Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP)
TP_0828	COG0736	holo-[acyl-carrier-protein] synthase activity
TP_0830	COG0101	tRNA pseudouridine synthase activity
TP_0831	COG0018	arginyl-trna synthetase
TP_0834	COG0162	Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction tyrosine is first activated by ATP to form Tyr- AMP and then transferred to the acceptor end of tRNA(Tyr)
TP_0837	COG0441	Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
TP_0838	COG0488	(ABC) transporter
TP_0841	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
TP_0842	COG0024	Methionine aminopeptidase
TP_0844	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
TP_0845	COG1671	Belongs to the UPF0178 family
TP_0846	COG3027	Activator of cell division through the inhibition of FtsZ GTPase activity, therefore promoting FtsZ assembly into bundles of protofilaments necessary for the formation of the division Z ring. It is recruited early at mid-cell but it is not essential for cell division
TP_0848	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
TP_0849	COG0291	Belongs to the bacterial ribosomal protein bL35 family
TP_0850	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
TP_0851	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
TP_0852	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
TP_0853	COG0455	bacterial-type flagellum organization
TP_0861	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
TP_0862	COG0545	Peptidyl-prolyl cis-trans isomerase
TP_0863	COG1104	cysteine desulfurase activity
TP_0864	COG1388	LysM domain
TP_0864	COG3942	CHAP domain
TP_0868	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
TP_0870	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
TP_0872	COG1345	Required for morphogenesis and for the elongation of the flagellar filament by facilitating polymerization of the flagellin monomers at the tip of growing filament. Forms a capping structure, which prevents flagellin subunits (transported through the central channel of the flagellum) from leaking out without polymerization at the distal end
TP_0872	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
TP_0875	COG0802	atpase or kinase
TP_0876	COG1214	PFAM Peptidase M22, glycoprotease
TP_0877	COG2770	Histidine kinase
TP_0877	COG3437	response regulator, receiver
TP_0881	COG4555	ABC transporter
TP_0885	COG0756	dUTP diphosphatase activity
TP_0886	COG1185	polyribonucleotide nucleotidyltransferase activity
TP_0887	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
TP_0889	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
TP_0890	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
TP_0891	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
TP_0893	COG0779	Required for maturation of 30S ribosomal subunits
TP_0900	COG2887	Belongs to the helicase family. UvrD subfamily
TP_0901	COG0534	Mate efflux family protein
TP_0903	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
TP_0905	COG0228	four-way junction DNA binding
TP_0906	COG1837	Belongs to the UPF0109 family
TP_0907	COG0806	An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes
TP_0908	COG0336	Belongs to the RNA methyltransferase TrmD family
TP_0909	COG0335	large ribosomal subunit rRNA binding
TP_0911	COG2257	FlhB HrpN YscU SpaS Family
TP_0913	COG0792	nuclease activity
TP_0917	COG2239	Acts as a magnesium transporter
TP_0919	COG3118	belongs to the thioredoxin family
TP_0920	COG0457	Tetratricopeptide repeat
TP_0924	COG2183	response to ionizing radiation
TP_0925	COG0716	FMN binding
TP_0926	COG0681	Belongs to the peptidase S26 family
TP_0929	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
TP_0930	COG2604	Protein of unknown function DUF115
TP_0933	COG0769	Catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan
TP_0936	COG1253	flavin adenine dinucleotide binding
TP_0945	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
TP_0946	COG0357	Ribosomal RNA small subunit methyltransferase G
TP_0947	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
TP_0948	COG1847	R3H domain protein
TP_0949	COG0706	membrane insertase activity
TP_0951	COG0230	Belongs to the bacterial ribosomal protein bL34 family
TP_0959	COG3951	Flagellar rod assembly protein muramidase FlgJ
TP_0961	COG4786	Flagellar basal body rod
TP_0963	COG1136	(ABC) transporter
TP_0963	COG0577	efflux transmembrane transporter activity
TP_0964	COG1136	(ABC) transporter
TP_0965	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
TP_0971	COG3470	protein probably involved in high-affinity Fe2 transport
TP_0972	COG0672	)-iron permease
TP_0973	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
TP_0975	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
TP_0977	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
TP_0978	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
TP_0979	COG0084	hydrolase, TatD family'
TP_0980	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
TP_0980	COG3116	cell division
TP_0981	COG0745	RESPONSE REGULATOR receiver
TP_0981	COG3706	GGDEF domain
TP_0984	COG0326	Molecular chaperone. Has ATPase activity
TP_0985	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)
TP_0988	COG2095	MarC family integral membrane protein
TP_0991	COG1773	rubredoxin
TP_0993	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
TP_0994	COG0084	hydrolase, TatD family'
TP_0997	COG0616	signal peptide processing
TP_0998	COG1115	amino acid carrier protein
TP_0999	COG1674	ftsk spoiiie
TP_1004	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
TP_1005	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
TP_1006	COG0187	DNA topoisomerase II activity
TP_1007	COG1351	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor, and NAD(P)H and FADH(2) as the reductant
TP_1008	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
TP_1009	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
TP_1010	COG0105	UTP biosynthetic process
TP_1011	COG0193	aminoacyl-tRNA hydrolase activity
TP_1012	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
TP_1013	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
TP_1015	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
TP_1016	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
TP_1017	COG0013	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain
TP_1018	COG1418	mRNA catabolic process
TP_1019	COG0721	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
TP_1020	COG0154	amidase activity
TP_1021	COG0064	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
TP_1022	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
TP_1023	COG2137	regulation of response to DNA damage stimulus
TP_1024	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
TP_1025	COG0102	This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly
TP_1027	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
TP_1028	COG0210	DNA helicase
TP_1029	COG0724	RNA recognition motif
TP_1032	COG5341	Protein conserved in bacteria
TP_1033	COG1752	Esterase of the alpha-beta hydrolase superfamily
TP_1034	COG0530	calcium, potassium:sodium antiporter activity
TP_1035	COG0525	valine-tRNA ligase activity
TP_1037	COG1272	protein, Hemolysin III
TP_1038	COG0783	Belongs to the Dps family
TP_1039	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
TP_1040	COG2269	With EpmB is involved in the beta-lysylation step of the post-translational modification of translation elongation factor P (EF-P). Catalyzes the ATP-dependent activation of (R)-beta-lysine produced by EpmB, forming a lysyl-adenylate, from which the beta- lysyl moiety is then transferred to the epsilon-amino group of a conserved specific lysine residue in EF-P
TP_1041	COG0740	serine-type endopeptidase activity