locus-tag	class	description
Thimo_0001	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
Thimo_0002	COG0594	ribonuclease P activity
Thimo_0003	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
Thimo_0004	COG0592	DNA-directed DNA polymerase activity
Thimo_0006	COG1262	PFAM Formylglycine-generating sulfatase enzyme
Thimo_0007	COG4301	Catalyzes the SAM-dependent triple methylation of the alpha-amino group of histidine to form hercynine, a step in the biosynthesis pathway of ergothioneine
Thimo_0009	COG2433	Pfam Transposase IS66
Thimo_0013	COG4969	Belongs to the N-Me-Phe pilin family
Thimo_0015	COG0463	Glycosyl transferase, family 2
Thimo_0019	COG0438	transferase activity, transferring glycosyl groups
Thimo_0028	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
Thimo_0040	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Thimo_0042	COG4531	ABC-type Zn2 transport system, periplasmic component surface adhesin
Thimo_0043	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
Thimo_0044	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
Thimo_0045	COG1459	type II secretion system
Thimo_0047	COG4970	Tfp pilus assembly protein FimT
Thimo_0048	COG2165	general secretion pathway protein
Thimo_0050	COG3156	type II secretion system protein K
Thimo_0051	COG3166	PFAM Fimbrial assembly family protein
Thimo_0054	COG1450	Type ii and iii secretion system protein
Thimo_0055	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
Thimo_0057	COG2226	methyltransferase
Thimo_0058	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
Thimo_0060	COG0815	Transfers the fatty acyl group on membrane lipoproteins
Thimo_0063	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
Thimo_0068	COG0586	Pfam SNARE associated Golgi protein
Thimo_0069	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
Thimo_0070	COG0352	thiamine-phosphate diphosphorylase activity
Thimo_0071	COG0352	thiamine-phosphate diphosphorylase activity
Thimo_0071	COG0351	phosphomethylpyrimidine kinase
Thimo_0072	COG1773	rubredoxin
Thimo_0074	COG0316	Belongs to the HesB IscA family
Thimo_0075	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
Thimo_0076	COG0210	DNA helicase
Thimo_0077	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
Thimo_0078	COG0635	Involved in the biosynthesis of porphyrin-containing compound
Thimo_0079	COG0254	rRNA binding
Thimo_0081	COG0372	Belongs to the citrate synthase family
Thimo_0088	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
Thimo_0089	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
Thimo_0090	COG0067	glutamate synthase
Thimo_0090	COG0069	glutamate synthase activity
Thimo_0090	COG0070	glutamate synthase
Thimo_0092	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
Thimo_0093	COG5002	protein histidine kinase activity
Thimo_0093	COG0784	Response regulator, receiver
Thimo_0096	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
Thimo_0097	COG0004	ammonium transporteR
Thimo_0101	COG0606	chelatase, subunit chli
Thimo_0102	COG0488	(ABC) transporter
Thimo_0103	COG0058	SHG alpha-glucan phosphorylase activity
Thimo_0105	COG0750	zinc metalloprotease
Thimo_0110	COG4783	chaperone-mediated protein folding
Thimo_0116	COG0628	permease
Thimo_0118	COG4636	protein conserved in cyanobacteria
Thimo_0120	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
Thimo_0121	COG0783	Belongs to the Dps family
Thimo_0122	COG1058	Belongs to the CinA family
Thimo_0122	COG1546	Belongs to the CinA family
Thimo_0123	COG0386	Belongs to the glutathione peroxidase family
Thimo_0124	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
Thimo_0126	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
Thimo_0127	COG0463	Glycosyl transferase, family 2
Thimo_0129	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
Thimo_0131	COG2854	intermembrane phospholipid transfer
Thimo_0134	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)
Thimo_0135	COG2084	Dehydrogenase
Thimo_0143	COG2221	Nitrite and sulphite reductase 4Fe-4S
Thimo_0144	COG2221	Nitrite and sulphite reductase 4Fe-4S
Thimo_0145	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
Thimo_0146	COG2923	Belongs to the DsrF TusC family
Thimo_0148	COG2920	part of a sulfur-relay system
Thimo_0155	COG1797	cobyrinic acid a,c-diamide synthase activity
Thimo_0158	COG0300	oxidoreductase activity
Thimo_0160	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
Thimo_0171	COG0647	UMP catabolic process
Thimo_0176	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
Thimo_0178	COG1324	tolerance protein
Thimo_0179	COG4232	protein-disulfide reductase activity
Thimo_0181	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
Thimo_0182	COG0511	ligase activity, forming carbon-carbon bonds
Thimo_0183	COG0439	Biotin carboxylase
Thimo_0184	COG2264	protein methyltransferase activity
Thimo_0185	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
Thimo_0186	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
Thimo_0187	COG0138	bifunctional purine biosynthesis protein purh
Thimo_0188	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
Thimo_0189	COG0151	Belongs to the GarS family
Thimo_0190	COG0616	signal peptide processing
Thimo_0191	COG2333	competence protein COMEC
Thimo_0191	COG0658	competence protein
Thimo_0193	COG1136	(ABC) transporter
Thimo_0194	COG4591	ABC-type transport system involved in lipoprotein release permease component
Thimo_0195	COG2957	Belongs to the agmatine deiminase family
Thimo_0197	COG1301	dicarboxylic acid transport
Thimo_0199	COG3093	addiction module antidote protein HigA
Thimo_0208	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
Thimo_0209	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
Thimo_0210	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
Thimo_0219	COG0642	Histidine kinase
Thimo_0223	COG1151	hydroxylamine reductase activity
Thimo_0225	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
Thimo_0226	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
Thimo_0226	COG1116	anion transmembrane transporter activity
Thimo_0229	COG1148	4fe-4S ferredoxin, iron-sulfur binding domain protein
Thimo_0229	COG2878	Part of a membrane complex involved in electron transport
Thimo_0230	COG4657	Part of a membrane complex involved in electron transport
Thimo_0231	COG4660	Part of a membrane complex involved in electron transport
Thimo_0232	COG4659	FMN binding
Thimo_0233	COG4658	electron transport chain
Thimo_0234	COG4656	Part of a membrane complex involved in electron transport
Thimo_0235	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
Thimo_0236	COG0045	succinate-CoA ligase (ADP-forming) activity
Thimo_0237	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
Thimo_0238	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
Thimo_0239	COG0039	L-malate dehydrogenase activity
Thimo_0241	COG0045	succinate-CoA ligase (ADP-forming) activity
Thimo_0242	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
Thimo_0246	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
Thimo_0250	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
Thimo_0250	COG0674	pyruvate-flavodoxin oxidoreductase activity
Thimo_0251	COG1013	pyruvate-flavodoxin oxidoreductase activity
Thimo_0253	COG3349	Catalyzes the conversion of zeta-carotene to lycopene via the intermediary of neurosporene. It carries out two consecutive desaturations (introduction of double bonds) at positions C-7 and C-7'
Thimo_0268	COG2204	response regulator
Thimo_0271	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
Thimo_0279	COG3190	flagellar
Thimo_0281	COG1987	bacterial-type flagellum assembly
Thimo_0283	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
Thimo_0284	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
Thimo_0286	COG0455	bacterial-type flagellum organization
Thimo_0293	COG1360	Flagellar Motor Protein
Thimo_0294	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
Thimo_0296	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
Thimo_0297	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
Thimo_0298	COG0505	Belongs to the CarA family
Thimo_0301	COG0577	efflux transmembrane transporter activity
Thimo_0301	COG1136	(ABC) transporter
Thimo_0304	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
Thimo_0328	COG1943	Transposase
Thimo_0329	COG0215	cysteine-tRNA ligase activity
Thimo_0330	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
Thimo_0334	COG0514	ATP-dependent DNA helicase (RecQ)
Thimo_0339	COG2183	response to ionizing radiation
Thimo_0342	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
Thimo_0343	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
Thimo_0344	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
Thimo_0344	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
Thimo_0347	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
Thimo_0353	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
Thimo_0355	COG1271	oxidase subunit
Thimo_0356	COG1294	oxidase, subunit
Thimo_0358	COG4988	ABC transporter
Thimo_0359	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
Thimo_0372	COG0189	ligase activity
Thimo_0376	COG0662	Cupin 2, conserved barrel domain protein
Thimo_0377	COG3604	Transcriptional regulator
Thimo_0379	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
Thimo_0380	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
Thimo_0382	COG0028	Belongs to the TPP enzyme family
Thimo_0384	COG0059	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate
Thimo_0385	COG3034	peptidoglycan biosynthetic process
Thimo_0390	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
Thimo_0402	COG1902	pentaerythritol trinitrate reductase activity
Thimo_0411	COG1560	Kdo2-lipid A biosynthetic process
Thimo_0413	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
Thimo_0414	COG2608	mercury ion transmembrane transporter activity
Thimo_0415	COG0837	glucose binding
Thimo_0417	COG2920	part of a sulfur-relay system
Thimo_0419	COG0746	molybdenum cofactor guanylyltransferase activity
Thimo_0423	COG1959	2 iron, 2 sulfur cluster binding
Thimo_0427	COG0318	PFAM AMP-dependent synthetase and ligase
Thimo_0429	COG0544	peptidyl-prolyl cis-trans isomerase activity
Thimo_0430	COG0740	serine-type endopeptidase activity
Thimo_0431	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
Thimo_0432	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
Thimo_0433	COG0776	regulation of translation
Thimo_0436	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
Thimo_0438	COG1960	acyl-CoA dehydrogenase activity
Thimo_0439	COG2025	fatty acid beta-oxidation using acyl-CoA dehydrogenase
Thimo_0440	COG2086	electron transfer activity
Thimo_0442	COG3228	Belongs to the MtfA family
Thimo_0443	COG1999	signal sequence binding
Thimo_0447	COG4944	Protein of unknown function (DUF1109)
Thimo_0448	COG1595	DNA-templated transcription, initiation
Thimo_0450	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
Thimo_0453	COG0432	Pfam Uncharacterised protein family UPF0047
Thimo_0455	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
Thimo_0460	COG3258	Cytochrome c
Thimo_0462	COG4636	protein conserved in cyanobacteria
Thimo_0463	COG3028	Belongs to the UPF0307 family
Thimo_0465	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
Thimo_0466	COG1053	succinate dehydrogenase
Thimo_0467	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
Thimo_0468	COG2938	An FAD assembly protein, which accelerates covalent attachment of the cofactor into other proteins. Plays an essential role in the assembly of succinate dehydrogenase (SDH, respiratory complex II), an enzyme complex that is a component of both the tricarboxylic acid cycle and the electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol. Required for flavinylation (covalent attachment of FAD) of the flavoprotein subunit SdhA of SDH
Thimo_0469	COG0789	Transcriptional regulator
Thimo_0472	COG1053	succinate dehydrogenase
Thimo_0472	COG3976	FMN-binding domain protein
Thimo_0473	COG1492	cobalamin metabolic process
Thimo_0481	COG0656	L-ascorbic acid biosynthetic process
Thimo_0484	COG1492	cobalamin metabolic process
Thimo_0495	COG0646	methionine synthase
Thimo_0495	COG1410	methionine synthase
Thimo_0499	COG4636	protein conserved in cyanobacteria
Thimo_0500	COG1797	cobyrinic acid a,c-diamide synthase activity
Thimo_0501	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
Thimo_0513	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
Thimo_0515	COG2199	diguanylate cyclase activity
Thimo_0515	COG2200	EAL domain
Thimo_0515	COG2203	Gaf domain
Thimo_0517	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
Thimo_0517	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
Thimo_0518	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
Thimo_0527	COG0535	radical SAM domain protein
Thimo_0530	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
Thimo_0531	COG1530	ribonuclease E activity
Thimo_0533	COG0546	phosphoglycolate phosphatase activity
Thimo_0534	COG0616	signal peptide processing
Thimo_0535	COG1388	LysM domain
Thimo_0535	COG0741	lytic transglycosylase activity
Thimo_0536	COG0424	maF-like protein
Thimo_0542	COG2308	Evidence 4 Homologs of previously reported genes of
Thimo_0544	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
Thimo_0545	COG2920	part of a sulfur-relay system
Thimo_0552	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
Thimo_0555	COG0828	Belongs to the bacterial ribosomal protein bS21 family
Thimo_0557	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
Thimo_0558	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
Thimo_0559	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
Thimo_0560	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
Thimo_0566	COG0730	response to heat
Thimo_0569	COG0446	pyridine nucleotide-disulphide oxidoreductase
Thimo_0570	COG0824	Thioesterase
Thimo_0574	COG0823	Involved in the tonB-independent uptake of proteins
Thimo_0577	COG0602	queuosine metabolic process
Thimo_0581	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
Thimo_0582	COG0149	triose-phosphate isomerase activity
Thimo_0585	COG0838	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
Thimo_0586	COG0377	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
Thimo_0587	COG0852	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
Thimo_0588	COG0649	NAD binding
Thimo_0589	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
Thimo_0591	COG1034	ATP synthesis coupled electron transport
Thimo_0591	COG1034	ATP synthesis coupled electron transport
Thimo_0592	COG1005	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. This subunit may bind ubiquinone
Thimo_0593	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
Thimo_0595	COG0713	ATP synthesis coupled electron transport
Thimo_0598	COG1007	ATP synthesis coupled electron transport
Thimo_0602	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
Thimo_0610	COG0515	serine threonine protein kinase
Thimo_0612	COG1570	exodeoxyribonuclease VII activity
Thimo_0618	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
Thimo_0623	COG4251	negative regulation of phosphorylation
Thimo_0623	COG3706	GGDEF domain
Thimo_0623	COG2203	Gaf domain
Thimo_0623	COG5001	Diguanylate cyclase
Thimo_0624	COG5002	protein histidine kinase activity
Thimo_0624	COG2205	protein histidine kinase activity
Thimo_0624	COG0784	Response regulator, receiver
Thimo_0625	COG3706	GGDEF domain
Thimo_0631	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
Thimo_0635	COG0577	efflux transmembrane transporter activity
Thimo_0636	COG1136	(ABC) transporter
Thimo_0636	COG0577	efflux transmembrane transporter activity
Thimo_0649	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
Thimo_0650	COG1459	type II secretion system
Thimo_0654	COG0741	lytic transglycosylase activity
Thimo_0655	COG4659	FMN binding
Thimo_0657	COG0672	)-iron permease
Thimo_0660	COG0714	Associated with various cellular activities
Thimo_0665	COG2205	protein histidine kinase activity
Thimo_0665	COG0784	Response regulator, receiver
Thimo_0665	COG5002	protein histidine kinase activity
Thimo_0666	COG3954	Phosphoribulokinase
Thimo_0667	COG4535	Mg2 and Co2 transporter CorC
Thimo_0668	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
Thimo_0669	COG1702	phosphate starvation-inducible protein PhoH
Thimo_0670	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
Thimo_0674	COG0187	DNA topoisomerase II activity
Thimo_0675	COG0433	COG0433 Predicted ATPase
Thimo_0677	COG1205	dead DEAH box helicase
Thimo_0677	COG1111	helicase
Thimo_0680	COG0567	Dehydrogenase, E1 component
Thimo_0681	COG0508	dehydrogenase complex catalyzes the overall conversion of
Thimo_0691	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
Thimo_0698	COG2308	Evidence 4 Homologs of previously reported genes of
Thimo_0700	COG3091	SprT-like family
Thimo_0701	COG0779	Required for maturation of 30S ribosomal subunits
Thimo_0702	COG0195	Participates in both transcription termination and antitermination
Thimo_0703	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
Thimo_0704	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
Thimo_0705	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
Thimo_0706	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
Thimo_0707	COG1185	polyribonucleotide nucleotidyltransferase activity
Thimo_0708	COG1196	nuclear chromosome segregation
Thimo_0708	COG3264	Mechanosensitive ion channel
Thimo_0710	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
Thimo_0711	COG0267	Belongs to the bacterial ribosomal protein bL33 family
Thimo_0712	COG0227	Belongs to the bacterial ribosomal protein bL28 family
Thimo_0713	COG0116	Belongs to the methyltransferase superfamily
Thimo_0713	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
Thimo_0714	COG0288	reversible hydration of carbon dioxide
Thimo_0717	COG2844	Modifies, by uridylylation and deuridylylation, the PII regulatory proteins (GlnB and homologs), in response to the nitrogen status of the cell that GlnD senses through the glutamine level. Under low glutamine levels, catalyzes the conversion of the PII proteins and UTP to PII-UMP and PPi, while under higher glutamine levels, GlnD hydrolyzes PII-UMP to PII and UMP (deuridylylation). Thus, controls uridylylation state and activity of the PII proteins, and plays an important role in the regulation of nitrogen
Thimo_0718	COG0024	Methionine aminopeptidase
Thimo_0719	COG0052	Belongs to the universal ribosomal protein uS2 family
Thimo_0720	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
Thimo_0721	COG0528	UMP kinase activity
Thimo_0722	COG0233	cytoplasmic translational termination
Thimo_0723	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
Thimo_0725	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
Thimo_0727	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
Thimo_0729	COG1044	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
Thimo_0730	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
Thimo_0731	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
Thimo_0734	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
Thimo_0736	COG0432	Pfam Uncharacterised protein family UPF0047
Thimo_0737	COG3956	TIGRFAM MazG family protein
Thimo_0738	COG2003	Belongs to the UPF0758 family
Thimo_0739	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
Thimo_0740	COG0756	dUTP diphosphatase activity
Thimo_0742	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
Thimo_0744	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
Thimo_0747	COG1872	DUF167
Thimo_0751	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
Thimo_0752	COG0689	Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates
Thimo_0753	COG3266	domain, Protein
Thimo_0753	COG0515	serine threonine protein kinase
Thimo_0754	COG1561	YicC-like family, N-terminal region
Thimo_0755	COG0194	GDP metabolic process
Thimo_0756	COG1758	RNA polymerase activity
Thimo_0757	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
Thimo_0760	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
Thimo_0762	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
Thimo_0763	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)
Thimo_0767	COG0745	RESPONSE REGULATOR receiver
Thimo_0767	COG3706	GGDEF domain
Thimo_0768	COG3958	Transketolase
Thimo_0777	COG0374	Belongs to the NiFe NiFeSe hydrogenase large subunit family
Thimo_0784	COG1222	aaa ATPase
Thimo_0828	COG1346	cytolysis
Thimo_0834	COG5002	protein histidine kinase activity
Thimo_0834	COG0784	Response regulator, receiver
Thimo_0840	COG1342	Belongs to the UPF0251 family
Thimo_0841	COG0489	protein tyrosine kinase activity
Thimo_0844	COG0563	adenylate kinase activity
Thimo_0845	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
Thimo_0849	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
Thimo_0850	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
Thimo_0851	COG0500	methyltransferase
Thimo_0856	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
Thimo_0873	COG1366	Belongs to the anti-sigma-factor antagonist family
Thimo_0876	COG0214	Catalyzes the formation of pyridoxal 5'-phosphate from ribose 5-phosphate (RBP), glyceraldehyde 3-phosphate (G3P) and ammonia. The ammonia is provided by the PdxT subunit. Can also use ribulose 5-phosphate and dihydroxyacetone phosphate as substrates, resulting from enzyme-catalyzed isomerization of RBP and G3P, respectively
Thimo_0877	COG0311	Catalyzes the hydrolysis of glutamine to glutamate and ammonia as part of the biosynthesis of pyridoxal 5'-phosphate. The resulting ammonia molecule is channeled to the active site of PdxS
Thimo_0883	COG0318	PFAM AMP-dependent synthetase and ligase
Thimo_0884	COG1850	ribulose-bisphosphate carboxylase activity
Thimo_0887	COG1443	Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)
Thimo_0915	COG1196	nuclear chromosome segregation
Thimo_0916	COG3115	cell septum assembly
Thimo_0917	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
Thimo_0921	COG0382	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate
Thimo_0922	COG0644	oxidoreductase
Thimo_0923	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
Thimo_0927	COG0583	DNA-binding transcription factor activity
Thimo_0930	COG0310	cobalt ion transport
Thimo_0931	COG0310	cobalt ion transport
Thimo_0934	COG0825	malonyl-CoA metabolic process
Thimo_0935	COG0037	tRNA processing
Thimo_0937	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
Thimo_0942	COG1177	transmembrane transport
Thimo_0943	COG1176	ABC-type spermidine putrescine transport system, permease component I
Thimo_0944	COG3842	ATPase activity
Thimo_0946	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
Thimo_0947	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
Thimo_0954	COG4251	negative regulation of phosphorylation
Thimo_0955	COG0467	Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction
Thimo_0956	COG1024	Enoyl-CoA hydratase
Thimo_0958	COG0489	protein tyrosine kinase activity
Thimo_0959	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
Thimo_0959	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
Thimo_0960	COG4657	Part of a membrane complex involved in electron transport
Thimo_0961	COG2878	Part of a membrane complex involved in electron transport
Thimo_0965	COG4660	Part of a membrane complex involved in electron transport
Thimo_0967	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
Thimo_0968	COG2350	Protein conserved in bacteria
Thimo_0969	COG2917	probably involved in intracellular septation
Thimo_0970	COG0613	PHP domain protein
Thimo_0971	COG0009	L-threonylcarbamoyladenylate synthase
Thimo_0972	COG1994	Peptidase M50
Thimo_0973	COG0180	Tryptophanyl-tRNA synthetase
Thimo_0974	COG1354	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpB that pull DNA away from mid-cell into both cell halves
Thimo_0975	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
Thimo_0992	COG0367	asparagine synthase
Thimo_1004	COG0438	transferase activity, transferring glycosyl groups
Thimo_1005	COG0457	Tetratricopeptide repeat
Thimo_1012	COG2801	Transposase and inactivated derivatives
Thimo_1013	COG0673	inositol 2-dehydrogenase activity
Thimo_1032	COG0316	Belongs to the HesB IscA family
Thimo_1034	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)
Thimo_1040	COG4464	protein tyrosine phosphatase activity
Thimo_1043	COG2951	lytic endotransglycosylase activity
Thimo_1044	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)
Thimo_1045	COG0382	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate
Thimo_1047	COG0237	dephospho-CoA kinase activity
Thimo_1052	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
Thimo_1053	COG1331	Highly conserved protein containing a thioredoxin domain
Thimo_1054	COG2225	Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA
Thimo_1057	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
Thimo_1058	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
Thimo_1060	COG0343	queuine tRNA-ribosyltransferase activity
Thimo_1061	COG1862	Preprotein translocase
Thimo_1062	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
Thimo_1063	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
Thimo_1068	COG1385	rRNA (uridine-N3-)-methyltransferase activity
Thimo_1069	COG2363	Small membrane protein
Thimo_1071	COG0165	Argininosuccinate lyase
Thimo_1075	COG2027	D-alanyl-D-alanine carboxypeptidase
Thimo_1076	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
Thimo_1077	COG1047	Peptidyl-prolyl cis-trans
Thimo_1080	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
Thimo_1081	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
Thimo_1083	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
Thimo_1084	COG0495	leucyl-tRNA aminoacylation
Thimo_1085	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
Thimo_1086	COG0508	dehydrogenase complex catalyzes the overall conversion of
Thimo_1096	COG0436	Aminotransferase
Thimo_1099	COG0429	hydrolase of the alpha beta-hydrolase fold
Thimo_1100	COG1538	Outer membrane efflux protein
Thimo_1101	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
Thimo_1107	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
Thimo_1111	COG2267	carboxylic ester hydrolase activity
Thimo_1114	COG2304	oxidoreductase activity
Thimo_1118	COG0714	Associated with various cellular activities
Thimo_1125	COG2146	nitrite reductase [NAD(P)H] activity
Thimo_1128	COG1242	4 iron, 4 sulfur cluster binding
Thimo_1131	COG3100	YcgL domain-containing protein
Thimo_1131	COG0561	phosphatase activity
Thimo_1132	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
Thimo_1137	COG0189	ligase activity
Thimo_1139	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)
Thimo_1140	COG0196	riboflavin kinase activity
Thimo_1141	COG0728	peptidoglycan biosynthetic process
Thimo_1142	COG0438	transferase activity, transferring glycosyl groups
Thimo_1143	COG5001	Diguanylate cyclase
Thimo_1143	COG5002	protein histidine kinase activity
Thimo_1150	COG3273	potassium ion transport
Thimo_1150	COG0471	metal ion transport
Thimo_1155	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
Thimo_1156	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
Thimo_1158	COG0598	Magnesium transport protein CorA
Thimo_1159	COG0714	Associated with various cellular activities
Thimo_1160	COG0445	tRNA wobble uridine modification
Thimo_1161	COG0357	Ribosomal RNA small subunit methyltransferase G
Thimo_1162	COG1192	Involved in chromosome partitioning
Thimo_1163	COG1475	DNA binding
Thimo_1165	COG0356	it plays a direct role in the translocation of protons across the membrane
Thimo_1167	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
Thimo_1168	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
Thimo_1169	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
Thimo_1171	COG0055	Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits
Thimo_1172	COG0355	proton-transporting ATP synthase activity, rotational mechanism
Thimo_1173	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
Thimo_1174	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
Thimo_1176	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
Thimo_1177	COG0134	indole-3-glycerol-phosphate synthase activity
Thimo_1180	COG1586	Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine
Thimo_1181	COG2941	Oxygenase that introduces the hydroxyl group at carbon five of 2-nonaprenyl-3-methyl-6-methoxy-1,4-benzoquinol resulting in the formation of 2-nonaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4- benzoquinol
Thimo_1182	COG0247	lactate metabolic process
Thimo_1183	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
Thimo_1187	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
Thimo_1188	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
Thimo_1190	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
Thimo_1194	COG3079	Belongs to the UPF0149 family
Thimo_1195	COG0006	proline dipeptidase activity
Thimo_1196	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
Thimo_1197	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
Thimo_1198	COG0205	6-phosphofructokinase activity
Thimo_1199	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
Thimo_1200	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
Thimo_1201	COG0315	cyclic pyranopterin monophosphate synthase activity
Thimo_1203	COG0218	Necessary for normal cell division and for the maintenance of normal septation
Thimo_1206	COG2171	N-acyltransferase activity
Thimo_1207	COG0436	Aminotransferase
Thimo_1211	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
Thimo_1213	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
Thimo_1213	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
Thimo_1217	COG1047	Peptidyl-prolyl cis-trans
Thimo_1223	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
Thimo_1227	COG0037	tRNA processing
Thimo_1228	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
Thimo_1234	COG1012	belongs to the aldehyde dehydrogenase family
Thimo_1235	COG0114	fumarate hydratase activity
Thimo_1240	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
Thimo_1241	COG0569	domain protein
Thimo_1242	COG2204	response regulator
Thimo_1243	COG5000	phosphorelay sensor kinase activity
Thimo_1246	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
Thimo_1247	COG0242	peptide deformylase activity
Thimo_1249	COG0758	DNA mediated transformation
Thimo_1250	COG2922	Belongs to the Smg family
Thimo_1252	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Thimo_1253	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Thimo_1253	COG1321	iron dependent repressor
Thimo_1254	COG1121	(ABC) transporter
Thimo_1255	COG0803	Belongs to the bacterial solute-binding protein 9 family
Thimo_1257	COG0009	L-threonylcarbamoyladenylate synthase
Thimo_1260	COG1408	metallophosphoesterase
Thimo_1263	COG0741	lytic transglycosylase activity
Thimo_1264	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
Thimo_1265	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
Thimo_1266	COG2914	Belongs to the UPF0125 (RnfH) family
Thimo_1268	COG4659	FMN binding
Thimo_1269	COG4658	electron transport chain
Thimo_1272	COG4657	Part of a membrane complex involved in electron transport
Thimo_1275	COG1343	CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Functions as a ssRNA-specific endoribonuclease. Involved in the integration of spacer DNA into the CRISPR cassette
Thimo_1276	COG1518	maintenance of DNA repeat elements
Thimo_1276	COG1468	defense response to virus
Thimo_1283	COG3744	PilT protein domain protein
Thimo_1290	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
Thimo_1291	COG0402	S-adenosylhomocysteine deaminase activity
Thimo_1294	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
Thimo_1300	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
Thimo_1301	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
Thimo_1302	COG0077	Prephenate dehydratase
Thimo_1302	COG1605	Chorismate mutase
Thimo_1303	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
Thimo_1304	COG0287	Prephenate dehydrogenase
Thimo_1309	COG0471	metal ion transport
Thimo_1309	COG0490	domain, Protein
Thimo_1313	COG0142	geranyltranstransferase activity
Thimo_1314	COG0261	This protein binds to 23S rRNA in the presence of protein L20
Thimo_1316	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
Thimo_1317	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
Thimo_1318	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
Thimo_1319	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
Thimo_1321	COG0504	CTP synthase activity
Thimo_1322	COG2877	3-deoxy-8-phosphooctulonate synthase activity
Thimo_1323	COG0148	phosphopyruvate hydratase activity
Thimo_1324	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
Thimo_1325	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
Thimo_1326	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
Thimo_1327	COG0585	pseudouridine synthase activity
Thimo_1329	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
Thimo_1330	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
Thimo_1331	COG1238	metal cluster binding
Thimo_1338	COG3278	Belongs to the heme-copper respiratory oxidase family
Thimo_1341	COG2010	Cytochrome c
Thimo_1342	COG0348	domain, Protein
Thimo_1344	COG2217	Heavy metal translocating P-type atpase
Thimo_1346	COG0320	Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives
Thimo_1347	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
Thimo_1348	COG0438	transferase activity, transferring glycosyl groups
Thimo_1350	COG4235	cytochrome complex assembly
Thimo_1352	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
Thimo_1354	COG2332	Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH
Thimo_1356	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
Thimo_1357	COG2386	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
Thimo_1358	COG4133	protoheme IX ABC transporter activity
Thimo_1359	COG0181	hydroxymethylbilane synthase activity
Thimo_1360	COG1587	Uroporphyrinogen-III synthase
Thimo_1365	COG0043	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity
Thimo_1368	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
Thimo_1369	COG3008	intermembrane lipid transfer
Thimo_1371	COG2995	paraquat-inducible protein a
Thimo_1372	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
Thimo_1374	COG2154	pterin-4-alpha-carbinolamine dehydratase
Thimo_1383	COG0655	NAD(P)H dehydrogenase (quinone) activity
Thimo_1387	COG4251	negative regulation of phosphorylation
Thimo_1388	COG1387	Histidinol phosphatase and related hydrolases of the PHP family
Thimo_1388	COG1796	DNA polymerase
Thimo_1389	COG0588	phosphoglycerate mutase activity
Thimo_1394	COG3174	membrane
Thimo_1399	COG2204	response regulator
Thimo_1403	COG0167	dihydroorotate dehydrogenase activity
Thimo_1404	COG0674	pyruvate-flavodoxin oxidoreductase activity
Thimo_1404	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
Thimo_1404	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
Thimo_1404	COG1013	pyruvate-flavodoxin oxidoreductase activity
Thimo_1405	COG0076	glutamate decarboxylase activity
Thimo_1407	COG3864	Putative metallopeptidase domain
Thimo_1413	COG4783	chaperone-mediated protein folding
Thimo_1416	COG0438	transferase activity, transferring glycosyl groups
Thimo_1419	COG0438	transferase activity, transferring glycosyl groups
Thimo_1430	COG0577	efflux transmembrane transporter activity
Thimo_1430	COG1136	(ABC) transporter
Thimo_1431	COG1136	(ABC) transporter
Thimo_1431	COG0577	efflux transmembrane transporter activity
Thimo_1432	COG1136	(ABC) transporter
Thimo_1438	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
Thimo_1442	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
Thimo_1444	COG4206	TonB-dependent receptor
Thimo_1450	COG1032	radical SAM domain protein
Thimo_1454	COG0583	DNA-binding transcription factor activity
Thimo_1455	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
Thimo_1456	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
Thimo_1462	COG0494	nUDIX hydrolase
Thimo_1463	COG3605	phosphoenolpyruvate-protein phosphotransferase activity
Thimo_1464	COG0277	FAD linked oxidase domain protein
Thimo_1466	COG0792	nuclease activity
Thimo_1469	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
Thimo_1470	COG1115	amino acid carrier protein
Thimo_1471	COG0271	Belongs to the BolA IbaG family
Thimo_1478	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
Thimo_1480	COG1666	GTP binding
Thimo_1482	COG0631	protein serine/threonine phosphatase activity
Thimo_1486	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
Thimo_1487	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
Thimo_1488	COG1390	Produces ATP from ADP in the presence of a proton gradient across the membrane
Thimo_1490	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
Thimo_1491	COG1269	ATP hydrolysis coupled proton transport
Thimo_1509	COG0360	Binds together with S18 to 16S ribosomal RNA
Thimo_1510	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
Thimo_1512	COG0359	binds to the 23S rRNA
Thimo_1513	COG0305	Participates in initiation and elongation during chromosome replication
Thimo_1514	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
Thimo_1516	COG0438	transferase activity, transferring glycosyl groups
Thimo_1519	COG0398	Pfam SNARE associated Golgi protein
Thimo_1521	COG3237	CsbD-like
Thimo_1523	COG0628	permease
Thimo_1525	COG2032	superoxide dismutase activity
Thimo_1530	COG0724	RNA recognition motif
Thimo_1536	COG1126	abc transporter atp-binding protein
Thimo_1537	COG0842	Transport permease protein
Thimo_1537	COG1131	(ABC) transporter
Thimo_1537	COG1716	ATPase activity
Thimo_1542	COG0765	amino acid transport
Thimo_1543	COG4597	amino acid ABC transporter
Thimo_1544	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
Thimo_1547	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
Thimo_1550	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
Thimo_1559	COG1295	ribonuclease BN
Thimo_1561	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
Thimo_1565	COG4181	ATPase activity
Thimo_1568	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
Thimo_1568	COG3008	intermembrane lipid transfer
Thimo_1571	COG2201	protein-glutamate methylesterase activity
Thimo_1573	COG1615	UPF0182 protein
Thimo_1578	COG1897	L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine
Thimo_1580	COG0243	molybdopterin cofactor binding
Thimo_1581	COG0437	4 iron, 4 sulfur cluster binding
Thimo_1582	COG3302	dmso reductase anchor subunit
Thimo_1584	COG3038	cytochrome b561
Thimo_1588	COG0446	pyridine nucleotide-disulphide oxidoreductase
Thimo_1589	COG0493	'glutamate synthase
Thimo_1590	COG2862	Uncharacterized protein family, UPF0114
Thimo_1592	COG1201	RNA secondary structure unwinding
Thimo_1598	COG1607	acyl-coa hydrolase
Thimo_1605	COG1643	Atp-dependent helicase
Thimo_1607	COG3706	GGDEF domain
Thimo_1607	COG0745	RESPONSE REGULATOR receiver
Thimo_1609	COG0012	GTP binding
Thimo_1613	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
Thimo_1616	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
Thimo_1617	COG1763	Mo-molybdopterin cofactor biosynthetic process
Thimo_1619	COG0587	DNA-directed DNA polymerase activity
Thimo_1622	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
Thimo_1623	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
Thimo_1628	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
Thimo_1632	COG0299	Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate
Thimo_1633	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
Thimo_1634	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
Thimo_1637	COG1254	Belongs to the acylphosphatase family
Thimo_1640	COG3243	poly(R)-hydroxyalkanoic acid synthase
Thimo_1642	COG0183	Belongs to the thiolase family
Thimo_1646	COG1028	Short-chain dehydrogenase reductase Sdr
Thimo_1647	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
Thimo_1648	COG0723	plastoquinol--plastocyanin reductase activity
Thimo_1649	COG1290	Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis
Thimo_1650	COG2857	Cytochrome c1
Thimo_1651	COG0625	glutathione transferase activity
Thimo_1652	COG2969	positive regulation of protein catabolic process
Thimo_1659	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
Thimo_1660	COG0308	aminopeptidase N
Thimo_1665	COG3547	Transposase (IS116 IS110 IS902 family)
Thimo_1673	COG1131	(ABC) transporter
Thimo_1674	COG0842	Transport permease protein
Thimo_1675	COG0842	Transport permease protein
Thimo_1677	COG0404	The glycine cleavage system catalyzes the degradation of glycine
Thimo_1678	COG0509	glycine decarboxylation via glycine cleavage system
Thimo_1679	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
Thimo_1680	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
Thimo_1681	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
Thimo_1682	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
Thimo_1683	COG0521	Mo-molybdopterin cofactor biosynthetic process
Thimo_1684	COG0303	'Molybdopterin
Thimo_1685	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
Thimo_1686	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
Thimo_1687	COG1376	ErfK ybiS ycfS ynhG family protein
Thimo_1692	COG0860	N-Acetylmuramoyl-L-alanine amidase
Thimo_1693	COG0802	atpase or kinase
Thimo_1694	COG0062	Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration
Thimo_1694	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
Thimo_1695	COG0137	argininosuccinate synthase activity
Thimo_1697	COG0747	negative chemotaxis
Thimo_1698	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
Thimo_1699	COG0022	dehydrogenase e1 component
Thimo_1700	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
Thimo_1704	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
Thimo_1706	COG0298	carbon dioxide binding
Thimo_1711	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
Thimo_1712	COG0284	orotidine-5'-phosphate decarboxylase activity
Thimo_1714	COG0704	Plays a role in the regulation of phosphate uptake
Thimo_1723	COG2205	protein histidine kinase activity
Thimo_1724	COG0745	RESPONSE REGULATOR receiver
Thimo_1731	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
Thimo_1733	COG2949	membrane
Thimo_1734	COG0422	Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction
Thimo_1740	COG0018	arginyl-trna synthetase
Thimo_1741	COG3153	acetyltransferase
Thimo_1741	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
Thimo_1744	COG0071	Belongs to the small heat shock protein (HSP20) family
Thimo_1745	COG2133	pyrroloquinoline quinone binding
Thimo_1760	COG1840	ABC-type Fe3 transport system, periplasmic component
Thimo_1762	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
Thimo_1767	COG0582	viral genome integration into host DNA
Thimo_1779	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
Thimo_1783	COG1469	GTP cyclohydrolase I activity
Thimo_1784	COG0142	geranyltranstransferase activity
Thimo_1785	COG1722	exodeoxyribonuclease VII activity
Thimo_1788	COG2212	antiporter activity
Thimo_1790	COG0651	ATP synthesis coupled electron transport
Thimo_1791	COG1006	Multisubunit Na H antiporter MnhC subunit
Thimo_1792	COG2111	Na H antiporter
Thimo_1792	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
Thimo_1793	COG1230	cation diffusion facilitator family transporter
Thimo_1796	COG1918	ferrous iron import across plasma membrane
Thimo_1800	COG0302	gtp cyclohydrolase
Thimo_1803	COG1363	Peptidase, m42
Thimo_1804	COG1162	GTPase activity
Thimo_1808	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
Thimo_1809	COG0123	including yeast histone deacetylase and acetoin utilization protein
Thimo_1810	COG0045	succinate-CoA ligase (ADP-forming) activity
Thimo_1810	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
Thimo_1810	COG1042	CoA-binding domain protein
Thimo_1812	COG0640	Transcriptional regulator
Thimo_1813	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
Thimo_1814	COG0798	PFAM Bile acid sodium symporter
Thimo_1815	COG0701	Predicted permease
Thimo_1825	COG3086	response to oxidative stress
Thimo_1826	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
Thimo_1827	COG0481	GTPase activity
Thimo_1828	COG0681	Belongs to the peptidase S26 family
Thimo_1830	COG0571	ribonuclease III activity
Thimo_1832	COG1381	Involved in DNA repair and RecF pathway recombination
Thimo_1833	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
Thimo_1839	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
Thimo_1845	COG1490	D-aminoacyl-tRNA deacylase activity
Thimo_1846	COG0131	Imidazoleglycerol-phosphate dehydratase
Thimo_1847	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
Thimo_1848	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
Thimo_1849	COG0140	phosphoribosyl-ATP diphosphatase activity
Thimo_1850	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
Thimo_1851	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
Thimo_1853	COG0583	DNA-binding transcription factor activity
Thimo_1856	COG3876	Protein conserved in bacteria
Thimo_1861	COG0693	protein deglycase activity
Thimo_1865	COG2173	Catalyzes hydrolysis of the D-alanyl-D-alanine dipeptide
Thimo_1868	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
Thimo_1869	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
Thimo_1872	COG2226	methyltransferase
Thimo_1876	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
Thimo_1877	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
Thimo_1879	COG0776	regulation of translation
Thimo_1881	COG2847	Copper chaperone PCu(A)C
Thimo_1883	COG0789	Transcriptional regulator
Thimo_1886	COG0640	Transcriptional regulator
Thimo_1887	COG1160	GTP binding
Thimo_1889	COG2976	Protein conserved in bacteria
Thimo_1890	COG0124	histidyl-tRNA synthetase
Thimo_1891	COG1426	Protein conserved in bacteria
Thimo_1893	COG0820	rRNA (adenine-C2-)-methyltransferase activity
Thimo_1894	COG0105	UTP biosynthetic process
Thimo_1895	COG3034	peptidoglycan biosynthetic process
Thimo_1899	COG0005	The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate
Thimo_1909	COG3093	addiction module antidote protein HigA
Thimo_1914	COG0668	transmembrane transport
Thimo_1916	COG0058	SHG alpha-glucan phosphorylase activity
Thimo_1917	COG3957	D-xylulose 5-phosphate D-fructose 6-phosphate phosphoketolase
Thimo_1919	COG0277	FAD linked oxidase domain protein
Thimo_1920	COG0277	FAD linked oxidase domain protein
Thimo_1921	COG0247	lactate metabolic process
Thimo_1922	COG0513	Belongs to the DEAD box helicase family
Thimo_1923	COG0724	RNA recognition motif
Thimo_1924	COG0442	prolyl-tRNA aminoacylation
Thimo_1925	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
Thimo_1926	COG4536	flavin adenine dinucleotide binding
Thimo_1929	COG2354	Protein conserved in bacteria
Thimo_1930	COG0004	ammonium transporteR
Thimo_1931	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
Thimo_1932	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
Thimo_1933	COG0280	phosphate acetyltransferase
Thimo_1933	COG0857	belongs to the CobB CobQ family
Thimo_1934	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
Thimo_1936	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
Thimo_1939	COG0438	transferase activity, transferring glycosyl groups
Thimo_1942	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
Thimo_1945	COG0297	glycogen (starch) synthase activity
Thimo_1946	COG1519	Transferase
Thimo_1948	COG2046	Belongs to the sulfate adenylyltransferase family
Thimo_1951	COG0741	lytic transglycosylase activity
Thimo_1952	COG3108	Peptidase M15
Thimo_1953	COG0557	exoribonuclease II activity
Thimo_1954	COG0354	folic acid binding
Thimo_1955	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
Thimo_1958	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
Thimo_1959	COG0084	hydrolase, TatD family'
Thimo_1961	COG3122	Protein conserved in bacteria
Thimo_1964	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
Thimo_1966	COG0589	response to stress
Thimo_1967	COG0439	Biotin carboxylase
Thimo_1968	COG0511	ligase activity, forming carbon-carbon bonds
Thimo_1968	COG5016	pyruvate
Thimo_1970	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
Thimo_1972	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
Thimo_1973	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
Thimo_1974	COG1196	nuclear chromosome segregation
Thimo_1974	COG0741	lytic transglycosylase activity
Thimo_1974	COG0739	heme binding
Thimo_1975	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
Thimo_1995	COG1136	(ABC) transporter
Thimo_1999	COG0851	Prevents the cell division inhibition by proteins MinC and MinD at internal division sites while permitting inhibition at polar sites. This ensures cell division at the proper site by restricting the formation of a division septum at the midpoint of the long axis of the cell
Thimo_2000	COG2894	cell division
Thimo_2001	COG0850	regulation of cytokinetic process
Thimo_2002	COG0537	adenosine 5'-monophosphoramidase activity
Thimo_2003	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
Thimo_2004	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
Thimo_2006	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
Thimo_2007	COG0488	(ABC) transporter
Thimo_2008	COG5001	Diguanylate cyclase
Thimo_2008	COG5002	protein histidine kinase activity
Thimo_2011	COG3409	Peptidoglycan-binding domain 1 protein
Thimo_2011	COG3267	Type II secretory pathway component ExeA
Thimo_2012	COG2379	hydroxypyruvate reductase
Thimo_2015	COG0628	permease
Thimo_2016	COG5001	Diguanylate cyclase
Thimo_2016	COG5002	protein histidine kinase activity
Thimo_2017	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
Thimo_2018	COG4279	zinc finger
Thimo_2019	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
Thimo_2023	COG3039	Transposase
Thimo_2026	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
Thimo_2036	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
Thimo_2040	COG1022	Amp-dependent synthetase and ligase
Thimo_2042	COG2022	thiamine diphosphate biosynthetic process
Thimo_2043	COG0220	tRNA (guanine-N7-)-methyltransferase activity
Thimo_2044	COG3842	ATPase activity
Thimo_2045	COG0390	transport system, permease component
Thimo_2046	COG2334	A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response
Thimo_2049	COG2193	ferroxidase activity
Thimo_2062	COG0745	RESPONSE REGULATOR receiver
Thimo_2063	COG2205	protein histidine kinase activity
Thimo_2064	COG4452	Inner membrane protein CreD
Thimo_2070	COG0601	transmembrane transport
Thimo_2071	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
Thimo_2072	COG1472	Belongs to the glycosyl hydrolase 3 family
Thimo_2076	COG1477	protein flavinylation
Thimo_2078	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)
Thimo_2081	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)
Thimo_2082	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
Thimo_2084	COG0513	Belongs to the DEAD box helicase family
Thimo_2085	COG1011	Hydrolase
Thimo_2086	COG0494	nUDIX hydrolase
Thimo_2089	COG1902	pentaerythritol trinitrate reductase activity
Thimo_2091	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
Thimo_2092	COG0542	response to heat
Thimo_2093	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
Thimo_2094	COG1278	Cold shock
Thimo_2095	COG0482	sulfurtransferase activity
Thimo_2096	COG2915	High frequency lysogenization protein hflD homolog
Thimo_2098	COG1214	PFAM Peptidase M22, glycoprotease
Thimo_2099	COG1199	ATP-dependent helicase activity
Thimo_2101	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
Thimo_2102	COG0842	Transport permease protein
Thimo_2103	COG1131	(ABC) transporter
Thimo_2109	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
Thimo_2110	COG2226	methyltransferase
Thimo_2110	COG0596	Alpha beta hydrolase
Thimo_2110	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
Thimo_2111	COG1350	The beta subunit is responsible for the synthesis of L- tryptophan from indole and L-serine
Thimo_2119	COG5522	Integral membrane protein (intg_mem_TP0381)
Thimo_2124	COG3045	CreA protein
Thimo_2128	COG2925	Exonuclease
Thimo_2129	COG0335	large ribosomal subunit rRNA binding
Thimo_2130	COG0336	Belongs to the RNA methyltransferase TrmD family
Thimo_2131	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
Thimo_2132	COG0228	four-way junction DNA binding
Thimo_2133	COG2239	Acts as a magnesium transporter
Thimo_2134	COG0513	Belongs to the DEAD box helicase family
Thimo_2135	COG1671	Belongs to the UPF0178 family
Thimo_2142	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
Thimo_2145	COG5002	protein histidine kinase activity
Thimo_2155	COG4608	Belongs to the ABC transporter superfamily
Thimo_2156	COG0444	Belongs to the ABC transporter superfamily
Thimo_2165	COG2204	response regulator
Thimo_2166	COG1132	(ABC) transporter
Thimo_2167	COG1793	dna ligase
Thimo_2170	COG1104	cysteine desulfurase activity
Thimo_2171	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
Thimo_2172	COG0191	fructose-bisphosphate aldolase activity
Thimo_2173	COG0469	pyruvate kinase activity
Thimo_2174	COG0126	phosphoglycerate kinase activity
Thimo_2175	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
Thimo_2176	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
Thimo_2178	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
Thimo_2179	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
Thimo_2180	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
Thimo_2181	COG2918	glutathione biosynthetic process
Thimo_2183	COG0242	peptide deformylase activity
Thimo_2188	COG0347	Belongs to the P(II) protein family
Thimo_2192	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
Thimo_2192	COG1246	Belongs to the acetyltransferase family. ArgA subfamily
Thimo_2196	COG0456	acetyltransferase
Thimo_2201	COG4115	mRNA cleavage
Thimo_2211	COG3100	YcgL domain-containing protein
Thimo_2211	COG0561	phosphatase activity
Thimo_2212	COG0366	Alpha amylase catalytic
Thimo_2213	COG2151	metal-sulfur cluster biosynthetic enzyme
Thimo_2214	COG0719	Fe-S assembly protein
Thimo_2215	COG0396	ATPase activity
Thimo_2216	COG0719	Fe-S assembly protein
Thimo_2218	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
Thimo_2220	COG0688	phosphatidylethanolamine metabolic process
Thimo_2221	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
Thimo_2222	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
Thimo_2223	COG1509	lysine 2,3-aminomutase activity
Thimo_2233	COG1051	belongs to the nudix hydrolase family
Thimo_2234	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
Thimo_2235	COG2863	cytochrome
Thimo_2236	COG0446	pyridine nucleotide-disulphide oxidoreductase
Thimo_2255	COG0542	response to heat
Thimo_2260	COG0243	molybdopterin cofactor binding
Thimo_2262	COG1394	ATPase activity, coupled to movement of substances
Thimo_2263	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
Thimo_2264	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
Thimo_2281	COG0418	dihydroorotase activity
Thimo_2283	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
Thimo_2285	COG1028	Short-chain dehydrogenase reductase Sdr
Thimo_2286	COG0723	plastoquinol--plastocyanin reductase activity
Thimo_2287	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)
Thimo_2288	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
Thimo_2297	COG0516	GMP reductase activity
Thimo_2297	COG0517	IMP dehydrogenase activity
Thimo_2299	COG1028	Short-chain dehydrogenase reductase Sdr
Thimo_2302	COG2983	Belongs to the UPF0260 family
Thimo_2315	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
Thimo_2316	COG1074	ATP-dependent DNA helicase activity
Thimo_2317	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
Thimo_2320	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
Thimo_2323	COG4191	Histidine kinase
Thimo_2324	COG4566	intracellular signal transduction
Thimo_2326	COG1444	tRNA N-acetyltransferase activity
Thimo_2328	COG0670	Belongs to the BI1 family
Thimo_2330	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)
Thimo_2331	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
Thimo_2332	COG0557	exoribonuclease II activity
Thimo_2334	COG3850	Histidine kinase
Thimo_2335	COG2197	response regulator
Thimo_2339	COG0647	UMP catabolic process
Thimo_2340	COG2308	Evidence 4 Homologs of previously reported genes of
Thimo_2340	COG2307	Protein conserved in bacteria
Thimo_2341	COG1305	Transglutaminase-like
Thimo_2343	COG0296	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position
Thimo_2344	COG3118	belongs to the thioredoxin family
Thimo_2345	COG3118	belongs to the thioredoxin family
Thimo_2347	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
Thimo_2349	COG1183	phosphatidylcholine synthase activity
Thimo_2350	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
Thimo_2352	COG3383	formate dehydrogenase (NAD+) activity
Thimo_2354	COG3259	Nickel-dependent hydrogenase
Thimo_2358	COG2135	peptidase activity
Thimo_2361	COG0745	RESPONSE REGULATOR receiver
Thimo_2363	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
Thimo_2365	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
Thimo_2367	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
Thimo_2368	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
Thimo_2369	COG0328	RNA-DNA hybrid ribonuclease activity
Thimo_2370	COG2226	methyltransferase
Thimo_2371	COG0129	dihydroxy-acid dehydratase activity
Thimo_2372	COG0084	hydrolase, TatD family'
Thimo_2374	COG0470	DNA polymerase III
Thimo_2375	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
Thimo_2376	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
Thimo_2378	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
Thimo_2379	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
Thimo_2381	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
Thimo_2382	COG0332	Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids
Thimo_2383	COG0416	fatty acid biosynthetic process
Thimo_2384	COG0333	Belongs to the bacterial ribosomal protein bL32 family
Thimo_2385	COG1399	metal-binding, possibly nucleic acid-binding protein
Thimo_2386	COG0104	Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP
Thimo_2387	COG3705	Required for the first step of histidine biosynthesis. May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
Thimo_2389	COG0330	HflC and HflK could
Thimo_2390	COG0330	HflC and HflK could
Thimo_2391	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
Thimo_2392	COG1923	regulation of RNA biosynthetic process
Thimo_2393	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)
Thimo_2394	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
Thimo_2397	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
Thimo_2403	COG1320	monovalent cation:proton antiporter activity
Thimo_2405	COG2111	Na H antiporter
Thimo_2406	COG1006	Multisubunit Na H antiporter MnhC subunit
Thimo_2407	COG0651	ATP synthesis coupled electron transport
Thimo_2408	COG0651	ATP synthesis coupled electron transport
Thimo_2410	COG0377	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
Thimo_2412	COG0649	NAD binding
Thimo_2416	COG4717	serine-type aminopeptidase activity
Thimo_2417	COG0420	3'-5' exonuclease activity
Thimo_2424	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
Thimo_2426	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
Thimo_2427	COG0527	aspartate kinase activity
Thimo_2428	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
Thimo_2429	COG2137	regulation of response to DNA damage stimulus
Thimo_2432	COG1546	Belongs to the CinA family
Thimo_2434	COG0543	2 iron, 2 sulfur cluster binding
Thimo_2434	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
Thimo_2436	COG0415	Belongs to the DNA photolyase family
Thimo_2437	COG1720	tRNA m6t6A37 methyltransferase activity
Thimo_2438	COG0680	Initiates the rapid degradation of small, acid-soluble proteins during spore germination
Thimo_2442	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
Thimo_2444	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
Thimo_2445	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)
Thimo_2446	COG1674	ftsk spoiiie
Thimo_2447	COG0492	ferredoxin-NADP+ reductase activity
Thimo_2449	COG2360	Functions in the N-end rule pathway of protein degradation where it conjugates Leu, Phe and, less efficiently, Met from aminoacyl-tRNAs to the N-termini of proteins containing an N-terminal arginine or lysine
Thimo_2450	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
Thimo_2451	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
Thimo_2461	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
Thimo_2466	COG4566	intracellular signal transduction
Thimo_2467	COG0668	transmembrane transport
Thimo_2470	COG4325	translation initiation factor activity
Thimo_2473	COG0628	permease
Thimo_2482	COG2823	Periplasmic or secreted lipoprotein
Thimo_2488	COG3459	Glycosyltransferase 36 associated
Thimo_2491	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
Thimo_2498	COG0848	biopolymer transport protein
Thimo_2499	COG0811	peptide transport
Thimo_2500	COG4771	TonB-dependent receptor
Thimo_2501	COG0523	cobalamin synthesis protein
Thimo_2509	COG0735	belongs to the Fur family
Thimo_2510	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Thimo_2513	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
Thimo_2521	COG1136	(ABC) transporter
Thimo_2526	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
Thimo_2528	COG0573	inorganic phosphate transmembrane transporter activity
Thimo_2530	COG2239	Acts as a magnesium transporter
Thimo_2531	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
Thimo_2532	COG3090	Trap-type c4-dicarboxylate transport system, small permease component
Thimo_2533	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
Thimo_2534	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
Thimo_2535	COG0484	heat shock protein binding
Thimo_2536	COG0443	Heat shock 70 kDa protein
Thimo_2537	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
Thimo_2538	COG1420	regulation of RNA biosynthetic process
Thimo_2539	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
Thimo_2540	COG0497	DNA recombination
Thimo_2541	COG0735	belongs to the Fur family
Thimo_2543	COG2914	Belongs to the UPF0125 (RnfH) family
Thimo_2544	COG2867	negative regulation of translational initiation
Thimo_2545	COG0733	neurotransmitter:sodium symporter activity
Thimo_2546	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
Thimo_2547	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
Thimo_2548	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
Thimo_2549	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
Thimo_2550	COG0189	ligase activity
Thimo_2553	COG1678	Uncharacterized ACR, COG1678
Thimo_2554	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
Thimo_2555	COG2065	Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant
Thimo_2556	COG0540	Belongs to the ATCase OTCase family
Thimo_2557	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
Thimo_2563	COG1166	arginine decarboxylase activity
Thimo_2564	COG0375	protein maturation
Thimo_2576	COG1598	PFAM Uncharacterised protein family UPF0150
Thimo_2579	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
Thimo_2580	COG0405	Gamma-glutamyltransferase
Thimo_2583	COG0668	transmembrane transport
Thimo_2584	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
Thimo_2597	COG5433	transposase activity
Thimo_2598	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
Thimo_2599	COG0424	maF-like protein
Thimo_2600	COG1530	ribonuclease E activity
Thimo_2603	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
Thimo_2604	COG0312	modulator of DNA gyrase
Thimo_2605	COG0312	modulator of DNA gyrase
Thimo_2607	COG1592	Rubrerythrin
Thimo_2608	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
Thimo_2609	COG3909	cytochrome
Thimo_2613	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
Thimo_2617	COG0322	excinuclease ABC activity
Thimo_2618	COG2197	response regulator
Thimo_2629	COG0717	Belongs to the dCTP deaminase family
Thimo_2630	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
Thimo_2635	COG0583	DNA-binding transcription factor activity
Thimo_2637	COG2210	Belongs to the sulfur carrier protein TusA family
Thimo_2638	COG0425	Belongs to the sulfur carrier protein TusA family
Thimo_2639	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
Thimo_2640	COG1648	precorrin-2 dehydrogenase activity
Thimo_2640	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
Thimo_2641	COG1968	undecaprenyl-diphosphatase activity
Thimo_2644	COG1286	toxin biosynthetic process
Thimo_2646	COG0285	dihydrofolate synthase activity
Thimo_2647	COG0777	Component of the acetyl coenzyme A carboxylase (ACC) complex. Biotin carboxylase (BC) catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the transcarboxylase to acetyl-CoA to form malonyl- CoA
Thimo_2648	COG0159	tryptophan synthase activity
Thimo_2649	COG0133	tryptophan synthase activity
Thimo_2651	COG0101	tRNA pseudouridine synthase activity
Thimo_2654	COG0473	3-isopropylmalate dehydrogenase activity
Thimo_2655	COG0066	3-isopropylmalate dehydratase activity
Thimo_2656	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
Thimo_2657	COG0268	Binds directly to 16S ribosomal RNA
Thimo_2663	COG0484	heat shock protein binding
Thimo_2665	COG0489	protein tyrosine kinase activity
Thimo_2676	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
Thimo_2680	COG1802	Transcriptional regulator
Thimo_2695	COG0741	lytic transglycosylase activity
Thimo_2701	COG1403	HNH endonuclease
Thimo_2713	COG0419	ATPase involved in DNA repair
Thimo_2717	COG0419	ATPase involved in DNA repair
Thimo_2721	COG4096	Type I site-specific restriction-modification system, R (Restriction) subunit and related
Thimo_2734	COG1704	LemA family
Thimo_2736	COG2255	four-way junction helicase activity
Thimo_2740	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
Thimo_2743	COG0357	Ribosomal RNA small subunit methyltransferase G
Thimo_2747	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
Thimo_2749	COG0040	Catalyzes the condensation of ATP and 5-phosphoribose 1- diphosphate to form N'-(5'-phosphoribosyl)-ATP (PR-ATP). Has a crucial role in the pathway because the rate of histidine biosynthesis seems to be controlled primarily by regulation of hisG enzymatic activity
Thimo_2750	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
Thimo_2753	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
Thimo_2754	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
Thimo_2755	COG1127	ABC transporter
Thimo_2757	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
Thimo_2760	COG1137	ATPase activity
Thimo_2765	COG1660	Displays ATPase and GTPase activities
Thimo_2767	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
Thimo_2768	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)
Thimo_2772	COG1429	ligase activity, forming nitrogen-metal bonds
Thimo_2776	COG0321	lipoyl(octanoyl) transferase activity
Thimo_2777	COG1686	Belongs to the peptidase S11 family
Thimo_2779	COG2951	lytic endotransglycosylase activity
Thimo_2780	COG0772	Belongs to the SEDS family
Thimo_2781	COG0768	penicillin binding
Thimo_2782	COG2891	Involved in formation of the rod shape of the cell. May also contribute to regulation of formation of penicillin-binding proteins
Thimo_2783	COG1792	Involved in formation and maintenance of cell shape
Thimo_2784	COG1077	Cell shape determining protein MreB Mrl
Thimo_2785	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)
Thimo_2786	COG0154	amidase activity
Thimo_2787	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)
Thimo_2790	COG0635	Involved in the biosynthesis of porphyrin-containing compound
Thimo_2791	COG1719	4-vinyl reductase, 4VR
Thimo_2793	COG0569	domain protein
Thimo_2793	COG0189	ligase activity
Thimo_2795	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
Thimo_2796	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
Thimo_2800	COG0811	peptide transport
Thimo_2805	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
Thimo_2807	COG1120	ATPase activity
Thimo_2808	COG1850	ribulose-bisphosphate carboxylase activity
Thimo_2814	COG0864	Transcriptional regulator
Thimo_2817	COG0745	RESPONSE REGULATOR receiver
Thimo_2817	COG3706	GGDEF domain
Thimo_2819	COG2885	chlorophyll binding
Thimo_2820	COG1132	(ABC) transporter
Thimo_2822	COG0776	regulation of translation
Thimo_2823	COG0072	phenylalanine-tRNA ligase activity
Thimo_2823	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
Thimo_2824	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
Thimo_2826	COG0291	Belongs to the bacterial ribosomal protein bL35 family
Thimo_2828	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)
Thimo_2831	COG0604	alcohol dehydrogenase
Thimo_2833	COG0203	ribosomal protein L17
Thimo_2834	COG0202	RNA polymerase activity
Thimo_2835	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
Thimo_2836	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
Thimo_2837	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
Thimo_2840	COG0201	protein transport
Thimo_2842	COG1841	ribosomal large subunit assembly
Thimo_2843	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
Thimo_2844	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
Thimo_2845	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
Thimo_2847	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
Thimo_2848	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
Thimo_2849	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
Thimo_2850	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
Thimo_2851	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
Thimo_2852	COG0255	Belongs to the universal ribosomal protein uL29 family
Thimo_2853	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
Thimo_2854	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
Thimo_2855	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
Thimo_2856	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
Thimo_2857	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
Thimo_2858	COG0089	rRNA binding
Thimo_2859	COG0088	Forms part of the polypeptide exit tunnel
Thimo_2860	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
Thimo_2861	COG0051	transcription antitermination factor activity, RNA binding
Thimo_2862	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
Thimo_2863	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
Thimo_2864	COG0049	tRNA binding
Thimo_2865	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
Thimo_2866	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
Thimo_2867	COG0085	RNA polymerase activity
Thimo_2868	COG0222	ribosome binding
Thimo_2869	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
Thimo_2870	COG0081	regulation of translation
Thimo_2871	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
Thimo_2873	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
Thimo_2875	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
Thimo_2883	COG2319	Wd-40 repeat
Thimo_2883	COG4249	Peptidase C14 caspase catalytic subunit p20
Thimo_2885	COG1943	Transposase
Thimo_2887	COG4249	Peptidase C14 caspase catalytic subunit p20
Thimo_2887	COG2319	Wd-40 repeat
Thimo_2889	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
Thimo_2890	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
Thimo_2890	COG0426	domain, Protein
Thimo_2892	COG0596	Alpha beta hydrolase
Thimo_2900	COG2217	Heavy metal translocating P-type atpase
Thimo_2903	COG1943	Transposase
Thimo_2907	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
Thimo_2915	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
Thimo_2916	COG3132	Protein of unknown function, DUF480
Thimo_2917	COG2949	membrane
Thimo_2920	COG4623	carbon-oxygen lyase activity, acting on polysaccharides
Thimo_2930	COG2304	oxidoreductase activity
Thimo_2934	COG0714	Associated with various cellular activities
Thimo_2935	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
Thimo_2940	COG2885	chlorophyll binding
Thimo_2944	COG0583	DNA-binding transcription factor activity
Thimo_2945	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
Thimo_2946	COG3002	Belongs to the UPF0753 family
Thimo_2947	COG1850	ribulose-bisphosphate carboxylase activity
Thimo_2948	COG4451	ribulose bisphosphate carboxylase, small
Thimo_2958	COG0583	DNA-binding transcription factor activity
Thimo_2962	COG5265	(ABC) transporter
Thimo_2964	COG3317	Gram-negative-bacterium-type cell outer membrane assembly
Thimo_2965	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
Thimo_2966	COG2716	regulation of RNA biosynthetic process
Thimo_2967	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
Thimo_2968	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
Thimo_2969	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
Thimo_2970	COG0720	synthase
Thimo_2971	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
Thimo_2975	COG2814	Major facilitator Superfamily
Thimo_2976	COG3474	cytochrome
Thimo_3003	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
Thimo_3004	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
Thimo_3005	COG1348	The key enzymatic reactions in nitrogen fixation are catalyzed by the nitrogenase complex which has 2 components the iron protein and the molybdenum-iron protein
Thimo_3007	COG0500	methyltransferase
Thimo_3008	COG0142	geranyltranstransferase activity
Thimo_3011	COG1562	ergosterol biosynthetic process
Thimo_3012	COG1233	COG1233 Phytoene dehydrogenase and related
Thimo_3014	COG1240	Involved in chlorophyll biosynthesis. Catalyzes the insertion of magnesium ion into protoporphyrin IX to yield Mg- protoporphyrin IX
Thimo_3020	COG2814	Major facilitator Superfamily
Thimo_3022	COG1348	The key enzymatic reactions in nitrogen fixation are catalyzed by the nitrogenase complex which has 2 components the iron protein and the molybdenum-iron protein
Thimo_3023	COG1429	ligase activity, forming nitrogen-metal bonds
Thimo_3024	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
Thimo_3025	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
Thimo_3029	COG2267	carboxylic ester hydrolase activity
Thimo_3030	COG0156	8-amino-7-oxononanoate synthase activity
Thimo_3031	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
Thimo_3038	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
Thimo_3039	COG1023	phosphogluconate dehydrogenase (decarboxylating) activity
Thimo_3040	COG0686	Belongs to the AlaDH PNT family
Thimo_3042	COG0326	Molecular chaperone. Has ATPase activity
Thimo_3043	COG0033	Phosphoglucomutase
Thimo_3044	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
Thimo_3046	COG1051	belongs to the nudix hydrolase family
Thimo_3047	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)
Thimo_3050	COG1355	regulation of microtubule-based process
Thimo_3057	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
Thimo_3071	COG1215	transferase activity, transferring glycosyl groups
Thimo_3076	COG2244	polysaccharide biosynthetic process
Thimo_3084	COG2204	response regulator
Thimo_3085	COG0741	lytic transglycosylase activity
Thimo_3097	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
Thimo_3098	COG0514	ATP-dependent DNA helicase (RecQ)
Thimo_3101	COG2814	Major facilitator Superfamily
Thimo_3104	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
Thimo_3107	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
Thimo_3108	COG1181	Belongs to the D-alanine--D-alanine ligase family
Thimo_3109	COG0812	UDP-N-acetylmuramate dehydrogenase activity
Thimo_3110	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
Thimo_3111	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)
Thimo_3112	COG0772	Belongs to the SEDS family
Thimo_3113	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
Thimo_3114	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
Thimo_3115	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
Thimo_3116	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
Thimo_3118	COG3116	cell division
Thimo_3119	COG0275	rRNA processing
Thimo_3122	COG0368	Joins adenosylcobinamide-GDP and alpha-ribazole to generate adenosylcobalamin (Ado-cobalamin). Also synthesizes adenosylcobalamin 5'-phosphate from adenosylcobinamide-GDP and alpha-ribazole 5'-phosphate
Thimo_3124	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
Thimo_3125	COG1131	(ABC) transporter
Thimo_3127	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
Thimo_3129	COG2890	protein-(glutamine-N5) methyltransferase activity
Thimo_3130	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
Thimo_3131	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
Thimo_3133	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
Thimo_3135	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)
Thimo_3136	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
Thimo_3137	COG0193	aminoacyl-tRNA hydrolase activity
Thimo_3138	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
Thimo_3141	COG5002	protein histidine kinase activity
Thimo_3142	COG0745	RESPONSE REGULATOR receiver
Thimo_3143	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
Thimo_3144	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
Thimo_3145	COG1538	Outer membrane efflux protein
Thimo_3148	COG4679	PFAM Phage derived protein Gp49-like (DUF891)
Thimo_3151	COG0210	DNA helicase
Thimo_3154	COG1160	GTP binding
Thimo_3156	COG1272	protein, Hemolysin III
Thimo_3157	COG1131	(ABC) transporter
Thimo_3160	COG0588	phosphoglycerate mutase activity
Thimo_3161	COG3706	GGDEF domain
Thimo_3163	COG1335	isochorismatase
Thimo_3171	COG1643	Atp-dependent helicase
Thimo_3172	COG2373	Large extracellular alpha-helical protein
Thimo_3173	COG4953	penicillin-binding protein 1C
Thimo_3180	COG3842	ATPase activity
Thimo_3181	COG4149	molybdate abc transporter
Thimo_3186	COG0848	biopolymer transport protein
Thimo_3187	COG0811	peptide transport
Thimo_3191	COG1830	Aldolase
Thimo_3193	COG0393	Putative heavy-metal-binding
Thimo_3197	COG0745	RESPONSE REGULATOR receiver
Thimo_3200	COG3409	Peptidoglycan-binding domain 1 protein
Thimo_3200	COG3773	Cell wall hydrolase
Thimo_3203	COG0651	ATP synthesis coupled electron transport
Thimo_3204	COG0650	Formate hydrogenlyase subunit 4
Thimo_3206	COG0651	ATP synthesis coupled electron transport
Thimo_3207	COG0649	NAD binding
Thimo_3208	COG3260	NADH ubiquinone oxidoreductase 20
Thimo_3222	COG1487	ribonuclease activity
Thimo_3227	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
Thimo_3228	COG1028	Short-chain dehydrogenase reductase Sdr
Thimo_3235	COG1740	oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor
Thimo_3245	COG1348	The key enzymatic reactions in nitrogen fixation are catalyzed by the nitrogenase complex which has 2 components the iron protein and the molybdenum-iron protein
Thimo_3250	COG0426	domain, Protein
Thimo_3255	COG5001	Diguanylate cyclase
Thimo_3255	COG3447	MASE1 domain protein
Thimo_3255	COG5002	protein histidine kinase activity
Thimo_3259	COG0281	malic enzyme
Thimo_3259	COG0280	phosphate acetyltransferase
Thimo_3261	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
Thimo_3262	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
Thimo_3263	COG2967	ApaG domain
Thimo_3266	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
Thimo_3267	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
Thimo_3272	COG2813	Specifically methylates the guanine in position
Thimo_3274	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
Thimo_3276	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
Thimo_3279	COG1220	this subunit has chaperone activity. The binding of ATP and its subsequent hydrolysis by HslU are essential for unfolding of protein substrates subsequently hydrolyzed by HslV. HslU recognizes the N-terminal part of its protein substrates and unfolds these before they are guided to HslV for hydrolysis
Thimo_3280	COG2226	methyltransferase
Thimo_3283	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
Thimo_3284	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
Thimo_3288	COG0477	Major facilitator Superfamily
Thimo_3289	COG0702	epimerase
Thimo_3295	COG2205	protein histidine kinase activity
Thimo_3297	COG0745	RESPONSE REGULATOR receiver
Thimo_3298	COG1234	tRNA 3'-trailer cleavage
Thimo_3299	COG0494	nUDIX hydrolase
Thimo_3301	COG0316	Belongs to the HesB IscA family
Thimo_3302	COG1704	LemA family
Thimo_3304	COG5001	Diguanylate cyclase
Thimo_3310	COG0596	Alpha beta hydrolase
Thimo_3312	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)
Thimo_3315	COG4948	Mandelate Racemase Muconate Lactonizing
Thimo_3318	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
Thimo_3319	COG0296	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position
Thimo_3320	COG1278	Cold shock
Thimo_3321	COG0330	HflC and HflK could
Thimo_3323	COG0314	molybdopterin synthase activity
Thimo_3326	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)
Thimo_3326	COG0574	Belongs to the PEP-utilizing enzyme family
Thimo_3328	COG0525	valine-tRNA ligase activity
Thimo_3329	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
Thimo_3331	COG2853	Lipoprotein
Thimo_3332	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
Thimo_3334	COG0367	asparagine synthase
Thimo_3337	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
Thimo_3339	COG1850	ribulose-bisphosphate carboxylase activity
Thimo_3342	COG2181	nitrate reductase activity
Thimo_3357	COG0649	NAD binding
Thimo_3359	COG3260	NADH ubiquinone oxidoreductase 20
Thimo_3361	COG2111	Na H antiporter
Thimo_3361	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
Thimo_3362	COG1573	uracil-dna glycosylase
Thimo_3363	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
Thimo_3368	COG1151	hydroxylamine reductase activity
Thimo_3373	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
Thimo_3374	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
Thimo_3375	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
Thimo_3376	COG0811	peptide transport
Thimo_3377	COG0848	biopolymer transport protein
Thimo_3378	COG1132	(ABC) transporter
Thimo_3379	COG1663	tetraacyldisaccharide 4'-kinase activity
Thimo_3380	COG2835	tetraacyldisaccharide 4'-kinase activity
Thimo_3381	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
Thimo_3393	COG2217	Heavy metal translocating P-type atpase
Thimo_3397	COG0306	phosphate transporter
Thimo_3398	COG0617	tRNA 3'-terminal CCA addition
Thimo_3402	COG0784	Response regulator, receiver
Thimo_3402	COG5002	protein histidine kinase activity
Thimo_3402	COG2205	protein histidine kinase activity
Thimo_3403	COG0745	RESPONSE REGULATOR receiver
Thimo_3403	COG3706	GGDEF domain
Thimo_3420	COG0501	Belongs to the peptidase M48B family
Thimo_3421	COG2010	Cytochrome c
Thimo_3424	COG1752	Esterase of the alpha-beta hydrolase superfamily
Thimo_3426	COG2205	protein histidine kinase activity
Thimo_3427	COG0745	RESPONSE REGULATOR receiver
Thimo_3436	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
Thimo_3437	COG0297	glycogen (starch) synthase activity
Thimo_3438	COG0366	Alpha amylase catalytic
Thimo_3440	COG0019	diaminopimelate decarboxylase activity
Thimo_3442	COG0708	Exodeoxyribonuclease III
Thimo_3443	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
Thimo_3445	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
Thimo_3447	COG5654	RES domain protein
Thimo_3454	COG3549	Plasmid maintenance system killer
Thimo_3459	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
Thimo_3463	COG0590	tRNA wobble adenosine to inosine editing
Thimo_3465	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
Thimo_3465	COG1328	CTP reductase activity
Thimo_3469	COG1819	glycosyl
Thimo_3481	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
Thimo_3492	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
Thimo_3493	COG1256	bacterial-type flagellum assembly
Thimo_3495	COG1706	bacterial-type flagellum-dependent cell motility
Thimo_3496	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
Thimo_3497	COG4786	Flagellar basal body rod
Thimo_3498	COG4787	bacterial-type flagellum-dependent cell motility
Thimo_3499	COG1749	Flagellar hook protein flgE
Thimo_3500	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
Thimo_3501	COG1558	bacterial-type flagellum-dependent cell motility
Thimo_3505	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
Thimo_3510	COG0617	tRNA 3'-terminal CCA addition
Thimo_3512	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
Thimo_3513	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
Thimo_3514	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
Thimo_3515	COG0297	glycogen (starch) synthase activity
Thimo_3516	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
Thimo_3517	COG0166	Belongs to the GPI family
Thimo_3518	COG2766	serine protein kinase
Thimo_3519	COG2718	Belongs to the UPF0229 family
Thimo_3520	COG2719	SpoVR family
Thimo_3521	COG2989	Protein conserved in bacteria
Thimo_3522	COG4067	protein conserved in archaea
Thimo_3522	COG0189	ligase activity
Thimo_3542	COG1253	flavin adenine dinucleotide binding
Thimo_3545	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
Thimo_3549	COG1752	Esterase of the alpha-beta hydrolase superfamily
Thimo_3557	COG2205	protein histidine kinase activity
Thimo_3562	COG2041	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. The catalytic subunit MsrP is non-stereospecific, being able to reduce both (R-) and (S-) diastereoisomers of methionine sulfoxide
Thimo_3563	COG4117	Thiosulfate reductase cytochrome B subunit (Membrane anchoring protein)
Thimo_3566	COG2898	Catalyzes the transfer of a lysyl group from L-lysyl- tRNA(Lys) to membrane-bound phosphatidylglycerol (PG), which produces lysylphosphatidylglycerol (LPG), a major component of the bacterial membrane with a positive net charge. LPG synthesis contributes to bacterial virulence as it is involved in the resistance mechanism against cationic antimicrobial peptides (CAMP) produces by the host's immune system (defensins, cathelicidins) and by the competing microorganisms
Thimo_3566	COG0392	lysyltransferase activity
Thimo_3573	COG1132	(ABC) transporter
Thimo_3589	COG0367	asparagine synthase
Thimo_3597	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
Thimo_3598	COG0517	IMP dehydrogenase activity
Thimo_3598	COG0516	GMP reductase activity
Thimo_3599	COG0518	GMP synthase (glutamine-hydrolyzing) activity
Thimo_3599	COG0519	Catalyzes the synthesis of GMP from XMP
Thimo_3602	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
Thimo_3603	COG1070	Carbohydrate kinase
Thimo_3604	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
Thimo_3605	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
Thimo_3606	COG4582	Cell division factor that enhances FtsZ-ring assembly. Directly interacts with FtsZ and promotes bundling of FtsZ protofilaments, with a reduction in FtsZ GTPase activity
Thimo_3607	COG0213	The enzymes which catalyze the reversible phosphorolysis of pyrimidine nucleosides are involved in the degradation of these compounds and in their utilization as carbon and energy sources, or in the rescue of pyrimidine bases for nucleotide synthesis
Thimo_3609	COG0217	transcriptional regulatory protein
Thimo_3610	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
Thimo_3611	COG0632	four-way junction helicase activity
Thimo_3612	COG0515	serine threonine protein kinase
Thimo_3612	COG1262	PFAM Formylglycine-generating sulfatase enzyme
Thimo_3613	COG3577	Aspartyl protease
Thimo_3614	COG0028	Belongs to the TPP enzyme family
Thimo_3616	COG0071	Belongs to the small heat shock protein (HSP20) family
Thimo_3617	COG0071	Belongs to the small heat shock protein (HSP20) family
Thimo_3618	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
Thimo_3620	COG2177	Part of the ABC transporter FtsEX involved in
Thimo_3621	COG2884	Cell division ATP-binding protein ftsE
Thimo_3622	COG0552	protein localization to endoplasmic reticulum
Thimo_3623	COG0612	Peptidase, M16
Thimo_3624	COG0612	Peptidase, M16
Thimo_3625	COG0742	ribosomal rna small subunit methyltransferase
Thimo_3626	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
Thimo_3627	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
Thimo_3628	COG0561	phosphatase activity
Thimo_3629	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
Thimo_3631	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
Thimo_3639	COG0560	Phosphoserine phosphatase
Thimo_3639	COG3830	Belongs to the UPF0237 family
Thimo_3642	COG3265	gluconokinase activity
Thimo_3643	COG4231	catalyzes the ferredoxin-dependent oxidative decarboxylation of arylpyruvates
Thimo_3650	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
Thimo_3651	COG0546	phosphoglycolate phosphatase activity
Thimo_3652	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
Thimo_3653	COG0667	Aldo Keto reductase
Thimo_3657	COG4175	Glycine betaine
Thimo_3661	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
Thimo_3665	COG0653	protein targeting
Thimo_3666	COG1364	Catalyzes two activities which are involved in the cyclic version of arginine biosynthesis the synthesis of N- acetylglutamate from glutamate and acetyl-CoA as the acetyl donor, and of ornithine by transacetylation between N(2)-acetylornithine and glutamate
Thimo_3667	COG0494	nUDIX hydrolase
Thimo_3668	COG0693	protein deglycase activity
Thimo_3669	COG0793	Belongs to the peptidase S41A family
Thimo_3670	COG4942	peptidase
Thimo_3671	COG0640	Transcriptional regulator
Thimo_3672	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
Thimo_3673	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
Thimo_3674	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
Thimo_3675	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
Thimo_3676	COG0167	dihydroorotate dehydrogenase activity
Thimo_3679	COG2204	response regulator
Thimo_3680	COG3852	Histidine kinase
Thimo_3682	COG0174	glutamine synthetase
Thimo_3683	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
Thimo_3685	COG0751	glycine-tRNA ligase activity
Thimo_3686	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
Thimo_3697	COG1358	cellular component organization or biogenesis
Thimo_3699	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
Thimo_3701	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
Thimo_3702	COG0706	membrane insertase activity
Thimo_3710	COG1509	lysine 2,3-aminomutase activity
Thimo_3711	COG1181	Belongs to the D-alanine--D-alanine ligase family
Thimo_3713	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
Thimo_3714	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
Thimo_3718	COG2433	Pfam Transposase IS66
Thimo_3728	COG3609	addiction module antidote protein, CC2985 family
Thimo_3730	COG2433	Pfam Transposase IS66
Thimo_3733	COG2003	Belongs to the UPF0758 family
Thimo_3738	COG1475	DNA binding
Thimo_3743	COG2003	Belongs to the UPF0758 family
Thimo_3753	COG3451	type IV secretory pathway VirB4
Thimo_3759	COG3504	Conjugal transfer protein
Thimo_3760	COG2948	multi-organism process
Thimo_3761	COG0630	type IV secretory pathway, VirB11 components, and related ATPases involved in Archaeal flagella biosynthesis
Thimo_3767	COG1192	Involved in chromosome partitioning
Thimo_3771	COG2433	Pfam Transposase IS66
Thimo_3774	COG3344	reverse transcriptase