locus-tag	class	description
THEMA_00005	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
THEMA_00010	COG0220	tRNA (guanine-N7-)-methyltransferase activity
THEMA_00025	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
THEMA_00025	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
THEMA_00045	COG0840	transmembrane signaling receptor activity
THEMA_00050	COG0306	phosphate transporter
THEMA_00060	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
THEMA_00065	COG1392	Phosphate transport regulator
THEMA_00070	COG3956	TIGRFAM MazG family protein
THEMA_00080	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
THEMA_00085	COG1684	flagellar biosynthetic protein fliR
THEMA_00090	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
THEMA_00095	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
THEMA_00100	COG1419	protein localization to endoplasmic reticulum
THEMA_00105	COG0455	bacterial-type flagellum organization
THEMA_00115	COG1776	CheC inhibitor of MCP methylation
THEMA_00120	COG1871	Probably deamidates glutamine residues to glutamate on methyl-accepting chemotaxis receptors (MCPs), playing an important role in chemotaxis
THEMA_00125	COG1191	sigma factor activity
THEMA_00150	COG2359	stage V sporulation protein S
THEMA_00155	COG1085	galactose-1-phosphate uridylyltransferase
THEMA_00160	COG0297	glycogen (starch) synthase activity
THEMA_00170	COG1968	undecaprenyl-diphosphatase activity
THEMA_00175	COG2239	Acts as a magnesium transporter
THEMA_00180	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
THEMA_00185	COG0750	zinc metalloprotease
THEMA_00190	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
THEMA_00200	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
THEMA_00205	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
THEMA_00220	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
THEMA_00225	COG2873	o-acetylhomoserine
THEMA_00230	COG1897	L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine
THEMA_00235	COG1883	Na -transporting methylmalonyl-CoA oxaloacetate decarboxylase, beta subunit
THEMA_00245	COG0674	pyruvate-flavodoxin oxidoreductase activity
THEMA_00245	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
THEMA_00250	COG0148	phosphopyruvate hydratase activity
THEMA_00255	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
THEMA_00265	COG1214	PFAM Peptidase M22, glycoprotease
THEMA_00270	COG0542	response to heat
THEMA_00275	COG0275	rRNA processing
THEMA_00285	COG0768	penicillin binding
THEMA_00315	COG1234	tRNA 3'-trailer cleavage
THEMA_00320	COG0359	binds to the 23S rRNA
THEMA_00330	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
THEMA_00335	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
THEMA_00340	COG1862	Preprotein translocase
THEMA_00350	COG0196	riboflavin kinase activity
THEMA_00355	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
THEMA_00360	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
THEMA_00365	COG1639	'signal transduction protein
THEMA_00370	COG5002	protein histidine kinase activity
THEMA_00375	COG0009	L-threonylcarbamoyladenylate synthase
THEMA_00385	COG1420	regulation of RNA biosynthetic process
THEMA_00390	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
THEMA_00395	COG0484	heat shock protein binding
THEMA_00400	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
THEMA_00405	COG1159	An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism
THEMA_00410	COG0295	cytidine deaminase activity
THEMA_00415	COG4535	Mg2 and Co2 transporter CorC
THEMA_00420	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
THEMA_00430	COG2201	protein-glutamate methylesterase activity
THEMA_00445	COG0772	Belongs to the SEDS family
THEMA_00455	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
THEMA_00460	COG0206	Essential cell division protein that forms a contractile ring structure (Z ring) at the future cell division site. The regulation of the ring assembly controls the timing and the location of cell division. One of the functions of the FtsZ ring is to recruit other cell division proteins to the septum to produce a new cell wall between the dividing cells. Binds GTP and shows GTPase activity
THEMA_00465	COG0849	cell division
THEMA_00475	COG0187	DNA topoisomerase II activity
THEMA_00485	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
THEMA_00490	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
THEMA_00505	COG3842	ATPase activity
THEMA_00515	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
THEMA_00530	COG0072	phenylalanine-tRNA ligase activity
THEMA_00530	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
THEMA_00545	COG1979	alcohol dehydrogenase
THEMA_00555	COG1922	lipopolysaccharide N-acetylmannosaminouronosyltransferase activity
THEMA_00575	COG0534	Mate efflux family protein
THEMA_00585	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
THEMA_00590	COG0395	ABC-type sugar transport system, permease component
THEMA_00610	COG1846	Transcriptional regulator
THEMA_00610	COG1940	carbohydrate kinase activity
THEMA_00615	COG0450	alkyl hydroperoxide reductase
THEMA_00625	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
THEMA_00630	COG1387	Histidinol phosphatase and related hydrolases of the PHP family
THEMA_00635	COG0504	CTP synthase activity
THEMA_00640	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
THEMA_00645	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
THEMA_00650	COG2070	2-Nitropropane dioxygenase
THEMA_00655	COG1268	BioY protein
THEMA_00660	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
THEMA_00665	COG2045	Belongs to the ComB family
THEMA_00685	COG1131	(ABC) transporter
THEMA_00690	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
THEMA_00695	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
THEMA_00700	COG0351	phosphomethylpyrimidine kinase
THEMA_00700	COG1992	Thiamine-phosphate synthase
THEMA_00710	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
THEMA_00715	COG1635	Involved in the biosynthesis of the thiazole moiety of thiamine. Catalyzes the conversion of NAD and glycine to adenosine diphosphate 5-(2-hydroxyethyl)-4-methylthiazole-2-carboxylate (ADT), an adenylated thiazole intermediate, using free sulfide as a source of sulfur
THEMA_00775	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
THEMA_00790	COG1774	PSP1 C-terminal conserved region
THEMA_00795	COG0470	DNA polymerase III
THEMA_00800	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
THEMA_00805	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
THEMA_00810	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
THEMA_00815	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
THEMA_00825	COG1131	(ABC) transporter
THEMA_00835	COG0393	Putative heavy-metal-binding
THEMA_00840	COG0052	Belongs to the universal ribosomal protein uS2 family
THEMA_00865	COG0457	Tetratricopeptide repeat
THEMA_00865	COG0463	Glycosyl transferase, family 2
THEMA_00870	COG1216	Glycosyl transferase, family 2
THEMA_00870	COG0463	Glycosyl transferase, family 2
THEMA_00875	COG0426	domain, Protein
THEMA_00880	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
THEMA_00885	COG2226	methyltransferase
THEMA_00890	COG1486	melibiose metabolic process
THEMA_00900	COG0572	uridine kinase
THEMA_00915	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
THEMA_00920	COG0793	Belongs to the peptidase S41A family
THEMA_00935	COG0438	transferase activity, transferring glycosyl groups
THEMA_00945	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
THEMA_00955	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)
THEMA_00960	COG2206	PFAM metal-dependent phosphohydrolase, HD sub domain
THEMA_00960	COG2199	diguanylate cyclase activity
THEMA_00975	COG1482	cell wall glycoprotein biosynthetic process
THEMA_00985	COG1206	Catalyzes the folate-dependent formation of 5-methyl- uridine at position 54 (M-5-U54) in all tRNAs
THEMA_01000	COG1636	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
THEMA_01005	COG1490	D-aminoacyl-tRNA deacylase activity
THEMA_01010	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
THEMA_01025	COG0312	modulator of DNA gyrase
THEMA_01030	COG0312	modulator of DNA gyrase
THEMA_01050	COG0557	exoribonuclease II activity
THEMA_01055	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
THEMA_01060	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
THEMA_01065	COG0215	cysteine-tRNA ligase activity
THEMA_01070	COG0835	chemotaxis
THEMA_01075	COG0511	ligase activity, forming carbon-carbon bonds
THEMA_01085	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
THEMA_01090	COG3620	sequence-specific DNA binding
THEMA_01090	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
THEMA_01090	COG0617	tRNA 3'-terminal CCA addition
THEMA_01120	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
THEMA_01125	COG0095	Lipoate-protein ligase
THEMA_01130	COG0357	Ribosomal RNA small subunit methyltransferase G
THEMA_01140	COG1136	(ABC) transporter
THEMA_01145	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
THEMA_01150	COG1546	Belongs to the CinA family
THEMA_01150	COG1058	Belongs to the CinA family
THEMA_01155	COG0643	Histidine kinase
THEMA_01155	COG2198	Histidine kinase
THEMA_01160	COG0835	chemotaxis
THEMA_01165	COG2201	protein-glutamate methylesterase activity
THEMA_01175	COG1338	Plays a role in the flagellum-specific transport system
THEMA_01190	COG0740	serine-type endopeptidase activity
THEMA_01195	COG0544	peptidyl-prolyl cis-trans isomerase activity
THEMA_01205	COG0736	holo-[acyl-carrier-protein] synthase activity
THEMA_01220	COG0126	phosphoglycerate kinase activity
THEMA_01220	COG0149	triose-phosphate isomerase activity
THEMA_01225	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
THEMA_01230	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
THEMA_01235	COG2812	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
THEMA_01265	COG1776	CheC inhibitor of MCP methylation
THEMA_01265	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
THEMA_01270	COG1868	FliM is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
THEMA_01280	COG1360	Flagellar Motor Protein
THEMA_01290	COG1582	Flagellar protein (FlbD)
THEMA_01330	COG0084	hydrolase, TatD family'
THEMA_01335	COG1045	serine acetyltransferase
THEMA_01340	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
THEMA_01355	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
THEMA_01365	COG1912	Pfam S-adenosyl-l-methionine hydroxide adenosyltransferase
THEMA_01370	COG1773	rubredoxin
THEMA_01375	COG2033	superoxide reductase activity
THEMA_01380	COG1592	Rubrerythrin
THEMA_01385	COG1476	TRANSCRIPTIONal
THEMA_01390	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
THEMA_01395	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
THEMA_01400	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
THEMA_01410	COG0561	phosphatase activity
THEMA_01430	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
THEMA_01440	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
THEMA_01460	COG1011	Hydrolase
THEMA_01470	COG1596	polysaccharide export
THEMA_01495	COG1705	Flagellar rod assembly protein muramidase FlgJ
THEMA_01495	COG3951	Flagellar rod assembly protein muramidase FlgJ
THEMA_01500	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
THEMA_01510	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
THEMA_01525	COG0438	transferase activity, transferring glycosyl groups
THEMA_01540	COG0438	transferase activity, transferring glycosyl groups
THEMA_01550	COG0438	transferase activity, transferring glycosyl groups
THEMA_01560	COG1216	Glycosyl transferase, family 2
THEMA_01560	COG1442	glycosyl transferase family 8
THEMA_01570	COG0438	transferase activity, transferring glycosyl groups
THEMA_01570	COG0297	glycogen (starch) synthase activity
THEMA_01575	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
THEMA_01575	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
THEMA_01630	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
THEMA_01640	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
THEMA_01645	COG0629	single-stranded DNA binding
THEMA_01650	COG0360	Binds together with S18 to 16S ribosomal RNA
THEMA_01680	COG1175	transmembrane transport
THEMA_01690	COG2252	PERMEase
THEMA_01710	COG0768	penicillin binding
THEMA_01725	COG1077	Cell shape determining protein MreB Mrl
THEMA_01730	COG1227	inorganic diphosphatase activity
THEMA_01730	COG0517	IMP dehydrogenase activity
THEMA_01735	COG0697	spore germination
THEMA_01740	COG0673	inositol 2-dehydrogenase activity
THEMA_01765	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
THEMA_01770	COG0037	tRNA processing
THEMA_01780	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
THEMA_01785	COG0456	acetyltransferase
THEMA_01790	COG2176	DNA-directed DNA polymerase activity
THEMA_01795	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
THEMA_01800	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
THEMA_01805	COG0815	Transfers the fatty acyl group on membrane lipoproteins
THEMA_01810	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
THEMA_01815	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
THEMA_01820	COG0552	protein localization to endoplasmic reticulum
THEMA_01835	COG1959	2 iron, 2 sulfur cluster binding
THEMA_01845	COG1489	DNA binding
THEMA_01870	COG0598	Magnesium transport protein CorA
THEMA_01885	COG0505	Belongs to the CarA family
THEMA_01890	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
THEMA_01895	COG0473	3-isopropylmalate dehydrogenase activity
THEMA_01900	COG0066	3-isopropylmalate dehydratase activity
THEMA_01905	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
THEMA_01915	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)
THEMA_01920	COG0129	dihydroxy-acid dehydratase activity
THEMA_01930	COG0440	acetolactate synthase activity
THEMA_01935	COG0028	Belongs to the TPP enzyme family
THEMA_01940	COG0527	aspartate kinase activity
THEMA_01945	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
THEMA_01950	COG0083	homoserine kinase activity
THEMA_01955	COG1131	(ABC) transporter
THEMA_01970	COG1951	Catalyzes the reversible hydration of fumarate to (S)- malate
THEMA_01970	COG1838	Catalyzes the reversible hydration of fumarate to (S)- malate
THEMA_01980	COG1350	The beta subunit is responsible for the synthesis of L- tryptophan from indole and L-serine
THEMA_01990	COG4717	serine-type aminopeptidase activity
THEMA_02005	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
THEMA_02010	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_02015	COG0601	transmembrane transport
THEMA_02020	COG0747	negative chemotaxis
THEMA_02025	COG4608	Belongs to the ABC transporter superfamily
THEMA_02030	COG2608	mercury ion transmembrane transporter activity
THEMA_02035	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
THEMA_02040	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
THEMA_02045	COG1923	regulation of RNA biosynthetic process
THEMA_02050	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)
THEMA_02065	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
THEMA_02070	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
THEMA_02075	COG0482	sulfurtransferase activity
THEMA_02100	COG1242	4 iron, 4 sulfur cluster binding
THEMA_02105	COG0442	prolyl-tRNA aminoacylation
THEMA_02110	COG0606	chelatase, subunit chli
THEMA_02120	COG1573	uracil-dna glycosylase
THEMA_02135	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
THEMA_02135	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
THEMA_02145	COG0459	protein refolding
THEMA_02150	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
THEMA_02155	COG0601	transmembrane transport
THEMA_02160	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_02165	COG0444	Belongs to the ABC transporter superfamily
THEMA_02170	COG4608	Belongs to the ABC transporter superfamily
THEMA_02180	COG0444	Belongs to the ABC transporter superfamily
THEMA_02195	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
THEMA_02200	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
THEMA_02205	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
THEMA_02210	COG0180	Tryptophanyl-tRNA synthetase
THEMA_02220	COG0846	NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form
THEMA_02230	COG2890	protein-(glutamine-N5) methyltransferase activity
THEMA_02235	COG2151	metal-sulfur cluster biosynthetic enzyme
THEMA_02245	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
THEMA_02255	COG1116	anion transmembrane transporter activity
THEMA_02285	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
THEMA_02290	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
THEMA_02295	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)
THEMA_02300	COG1196	nuclear chromosome segregation
THEMA_02315	COG1335	isochorismatase
THEMA_02330	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
THEMA_02350	COG0745	RESPONSE REGULATOR receiver
THEMA_02360	COG0217	transcriptional regulatory protein
THEMA_02370	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
THEMA_02375	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
THEMA_02380	COG0564	pseudouridine synthase activity
THEMA_02385	COG0587	DNA-directed DNA polymerase activity
THEMA_02390	COG0747	negative chemotaxis
THEMA_02395	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
THEMA_02400	COG0085	RNA polymerase activity
THEMA_02405	COG0222	ribosome binding
THEMA_02410	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
THEMA_02415	COG0081	regulation of translation
THEMA_02425	COG0250	Participates in transcription elongation, termination and antitermination
THEMA_02430	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
THEMA_02440	COG0267	Belongs to the bacterial ribosomal protein bL33 family
THEMA_02480	COG1351	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor, and NAD(P)H and FADH(2) as the reductant
THEMA_02485	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
THEMA_02490	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
THEMA_02495	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
THEMA_02500	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
THEMA_02505	COG1027	Aspartate ammonia-lyase
THEMA_02510	COG1070	Carbohydrate kinase
THEMA_02520	COG1028	Short-chain dehydrogenase reductase Sdr
THEMA_02530	COG1802	Transcriptional regulator
THEMA_02535	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
THEMA_02550	COG3458	cephalosporin-C deacetylase activity
THEMA_02555	COG1486	melibiose metabolic process
THEMA_02560	COG3866	Pectate lyase
THEMA_02570	COG1175	transmembrane transport
THEMA_02575	COG0395	ABC-type sugar transport system, permease component
THEMA_02580	COG0840	transmembrane signaling receptor activity
THEMA_02585	COG1902	pentaerythritol trinitrate reductase activity
THEMA_02610	COG0371	Dehydrogenase
THEMA_02620	COG3842	ATPase activity
THEMA_02625	COG3833	ABC-type maltose transport systems, permease component
THEMA_02630	COG1175	transmembrane transport
THEMA_02640	COG0672	)-iron permease
THEMA_02645	COG1082	Xylose isomerase domain protein TIM barrel
THEMA_02655	COG0673	inositol 2-dehydrogenase activity
THEMA_02660	COG1402	creatininase
THEMA_02665	COG1063	alcohol dehydrogenase
THEMA_02680	COG0739	heme binding
THEMA_02685	COG2201	protein-glutamate methylesterase activity
THEMA_02700	COG1013	pyruvate-flavodoxin oxidoreductase activity
THEMA_02710	COG0347	Belongs to the P(II) protein family
THEMA_02715	COG0004	ammonium transporteR
THEMA_02720	COG1435	thymidine kinase activity
THEMA_02725	COG5002	protein histidine kinase activity
THEMA_02725	COG3850	Histidine kinase
THEMA_02740	COG0067	glutamate synthase
THEMA_02750	COG0493	'glutamate synthase
THEMA_02750	COG1142	4fe-4S ferredoxin, iron-sulfur binding domain protein
THEMA_02770	COG0438	transferase activity, transferring glycosyl groups
THEMA_02775	COG1131	(ABC) transporter
THEMA_02790	COG0778	Nitroreductase
THEMA_02805	COG0778	Nitroreductase
THEMA_02810	COG1194	a g-specific adenine glycosylase
THEMA_02825	COG0446	pyridine nucleotide-disulphide oxidoreductase
THEMA_02830	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
THEMA_02835	COG0730	response to heat
THEMA_02840	COG4869	propanediol catabolic process
THEMA_02845	COG0071	Belongs to the small heat shock protein (HSP20) family
THEMA_02850	COG0443	Heat shock 70 kDa protein
THEMA_02860	COG1438	arginine binding
THEMA_02865	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
THEMA_02885	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
THEMA_02890	COG1362	aminopeptidase activity
THEMA_02895	COG0366	Alpha amylase catalytic
THEMA_02905	COG0648	Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin
THEMA_02915	COG3956	TIGRFAM MazG family protein
THEMA_02925	COG1597	lipid kinase activity
THEMA_02935	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
THEMA_02950	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
THEMA_02955	COG1136	(ABC) transporter
THEMA_02960	COG0577	efflux transmembrane transporter activity
THEMA_02960	COG1136	(ABC) transporter
THEMA_02970	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
THEMA_02975	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
THEMA_02975	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
THEMA_02980	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
THEMA_02985	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)
THEMA_02990	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
THEMA_03000	COG2876	3-deoxy-7-phosphoheptulonate synthase activity
THEMA_03035	COG1032	radical SAM domain protein
THEMA_03040	COG1073	alpha beta
THEMA_03045	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
THEMA_03050	COG0543	2 iron, 2 sulfur cluster binding
THEMA_03055	COG0167	dihydroorotate dehydrogenase activity
THEMA_03060	COG0284	orotidine-5'-phosphate decarboxylase activity
THEMA_03065	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
THEMA_03070	COG1574	metal-dependent hydrolase with the TIM-barrel fold
THEMA_03090	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
THEMA_03095	COG1737	Transcriptional regulator
THEMA_03100	COG1028	Short-chain dehydrogenase reductase Sdr
THEMA_03105	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
THEMA_03115	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
THEMA_03135	COG2226	methyltransferase
THEMA_03140	COG2217	Heavy metal translocating P-type atpase
THEMA_03160	COG0667	Aldo Keto reductase
THEMA_03165	COG0673	inositol 2-dehydrogenase activity
THEMA_03180	COG0747	negative chemotaxis
THEMA_03185	COG1501	Belongs to the glycosyl hydrolase 31 family
THEMA_03210	COG4608	Belongs to the ABC transporter superfamily
THEMA_03215	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_03220	COG0601	transmembrane transport
THEMA_03235	COG1063	alcohol dehydrogenase
THEMA_03240	COG1028	Short-chain dehydrogenase reductase Sdr
THEMA_03245	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
THEMA_03250	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
THEMA_03255	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
THEMA_03260	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
THEMA_03265	COG0066	3-isopropylmalate dehydratase activity
THEMA_03270	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
THEMA_03275	COG0372	Belongs to the citrate synthase family
THEMA_03280	COG0205	6-phosphofructokinase activity
THEMA_03285	COG1132	(ABC) transporter
THEMA_03290	COG1132	(ABC) transporter
THEMA_03300	COG0371	Dehydrogenase
THEMA_03310	COG0235	Class ii aldolase
THEMA_03320	COG3534	alpha-L-arabinofuranosidase
THEMA_03330	COG0395	ABC-type sugar transport system, permease component
THEMA_03335	COG1175	transmembrane transport
THEMA_03345	COG2160	L-arabinose isomerase activity
THEMA_03355	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
THEMA_03360	COG0191	fructose-bisphosphate aldolase activity
THEMA_03365	COG0574	Belongs to the PEP-utilizing enzyme family
THEMA_03365	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)
THEMA_03375	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
THEMA_03375	COG0646	methionine synthase
THEMA_03385	COG0646	methionine synthase
THEMA_03385	COG1410	methionine synthase
THEMA_03390	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
THEMA_03395	COG0776	regulation of translation
THEMA_03400	COG0322	excinuclease ABC activity
THEMA_03405	COG1187	pseudouridine synthase activity
THEMA_03410	COG0445	tRNA wobble uridine modification
THEMA_03415	COG0592	DNA-directed DNA polymerase activity
THEMA_03420	COG0306	phosphate transporter
THEMA_03435	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
THEMA_03440	COG3481	metal-dependent phosphohydrolase, HD sub domain
THEMA_03455	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
THEMA_03460	COG0792	nuclease activity
THEMA_03465	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)
THEMA_03470	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
THEMA_03475	COG0758	DNA mediated transformation
THEMA_03480	COG2878	Part of a membrane complex involved in electron transport
THEMA_03480	COG1148	4fe-4S ferredoxin, iron-sulfur binding domain protein
THEMA_03490	COG4660	Part of a membrane complex involved in electron transport
THEMA_03500	COG4658	electron transport chain
THEMA_03505	COG4656	Part of a membrane complex involved in electron transport
THEMA_03510	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
THEMA_03530	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
THEMA_03540	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
THEMA_03545	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
THEMA_03550	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
THEMA_03555	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
THEMA_03560	COG0772	Belongs to the SEDS family
THEMA_03565	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)
THEMA_03570	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
THEMA_03600	COG2515	1-aminocyclopropane-1-carboxylate deaminase
THEMA_03605	COG1654	Acts both as a biotin-- acetyl-CoA-carboxylase ligase and a biotin-operon repressor. In the presence of ATP, BirA activates biotin to form the BirA-biotinyl-5'-adenylate (BirA-bio- 5'-AMP or holoBirA) complex. HoloBirA can either transfer the biotinyl moiety to the biotin carboxyl carrier protein (BCCP) subunit of acetyl-CoA carboxylase, or bind to the biotin operator site and inhibit transcription of the operon
THEMA_03605	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
THEMA_03615	COG1122	ATPase activity
THEMA_03620	COG1766	The M ring may be actively involved in energy transduction
THEMA_03625	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
THEMA_03635	COG1157	protein secretion by the type III secretion system
THEMA_03640	COG0751	glycine-tRNA ligase activity
THEMA_03645	COG0752	glycyl-tRNA synthetase alpha subunit
THEMA_03655	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
THEMA_03660	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
THEMA_03665	COG0509	glycine decarboxylation via glycine cleavage system
THEMA_03670	COG0404	The glycine cleavage system catalyzes the degradation of glycine
THEMA_03680	COG0205	6-phosphofructokinase activity
THEMA_03685	COG0469	pyruvate kinase activity
THEMA_03690	COG2220	Zn-dependent hydrolases of the beta-lactamase fold
THEMA_03705	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)
THEMA_03730	COG1623	Has also diadenylate cyclase activity, catalyzing the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP). c- di-AMP acts as a signaling molecule that couples DNA integrity with progression of sporulation. The rise in c-di-AMP level generated by DisA while scanning the chromosome, operates as a positive signal that advances sporulation
THEMA_03735	COG1066	DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function
THEMA_03740	COG0542	response to heat
THEMA_03745	COG0037	tRNA processing
THEMA_03755	COG0248	Ppx GppA phosphatase
THEMA_03775	COG0390	transport system, permease component
THEMA_03805	COG2359	stage V sporulation protein S
THEMA_03810	COG4559	Part of the ABC transporter complex HmuTUV involved in hemin import. Responsible for energy coupling to the transport system
THEMA_03815	COG4139	cobalamin transport
THEMA_03855	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
THEMA_03865	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
THEMA_03910	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
THEMA_03915	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
THEMA_03925	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
THEMA_03930	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
THEMA_03935	COG1110	DNA topoisomerase II activity
THEMA_03940	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
THEMA_03945	COG2179	HAD superfamily (subfamily IIIA) phosphatase, TIGR01668
THEMA_03955	COG2344	Modulates transcription in response to changes in cellular NADH NAD( ) redox state
THEMA_03960	COG0495	leucyl-tRNA aminoacylation
THEMA_03965	COG1015	Phosphotransfer between the C1 and C5 carbon atoms of pentose
THEMA_03970	COG0285	dihydrofolate synthase activity
THEMA_03975	COG0632	four-way junction helicase activity
THEMA_04005	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
THEMA_04010	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
THEMA_04025	COG1785	Belongs to the alkaline phosphatase family
THEMA_04050	COG0333	Belongs to the bacterial ribosomal protein bL32 family
THEMA_04055	COG0416	fatty acid biosynthetic process
THEMA_04060	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
THEMA_04065	COG0799	negative regulation of ribosome biogenesis
THEMA_04070	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
THEMA_04075	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
THEMA_04095	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
THEMA_04100	COG0512	Glutamine amidotransferase of anthranilate synthase
THEMA_04100	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
THEMA_04105	COG0134	indole-3-glycerol-phosphate synthase activity
THEMA_04110	COG0135	phosphoribosylanthranilate isomerase activity
THEMA_04115	COG0133	tryptophan synthase activity
THEMA_04120	COG0159	tryptophan synthase activity
THEMA_04125	COG0820	rRNA (adenine-C2-)-methyltransferase activity
THEMA_04135	COG0492	ferredoxin-NADP+ reductase activity
THEMA_04140	COG1335	isochorismatase
THEMA_04145	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
THEMA_04175	COG0745	RESPONSE REGULATOR receiver
THEMA_04180	COG1108	ABC-type Mn2 Zn2 transport systems permease components
THEMA_04185	COG1121	(ABC) transporter
THEMA_04190	COG0803	Belongs to the bacterial solute-binding protein 9 family
THEMA_04200	COG1509	lysine 2,3-aminomutase activity
THEMA_04205	COG0778	Nitroreductase
THEMA_04225	COG1070	Carbohydrate kinase
THEMA_04230	COG1129	ABC transporter
THEMA_04245	COG1172	Belongs to the binding-protein-dependent transport system permease family
THEMA_04255	COG1940	carbohydrate kinase activity
THEMA_04265	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
THEMA_04305	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
THEMA_04315	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
THEMA_04320	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
THEMA_04325	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
THEMA_04325	COG3116	cell division
THEMA_04330	COG1633	Catalyzes the formation of the isocyclic ring in chlorophyll biosynthesis. Mediates the cyclase reaction, which results in the formation of divinylprotochlorophyllide (Pchlide) characteristic of all chlorophylls from magnesium-protoporphyrin IX 13-monomethyl ester (MgPMME)
THEMA_04370	COG1355	regulation of microtubule-based process
THEMA_04375	COG0728	peptidoglycan biosynthetic process
THEMA_04395	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
THEMA_04400	COG1699	Binds to the C-terminal region of flagellin, which is implicated in polymerization, and participates in the assembly of the flagellum
THEMA_04405	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
THEMA_04410	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
THEMA_04415	COG1120	ATPase activity
THEMA_04420	COG3458	cephalosporin-C deacetylase activity
THEMA_04425	COG1472	Belongs to the glycosyl hydrolase 3 family
THEMA_04430	COG4608	Belongs to the ABC transporter superfamily
THEMA_04440	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_04445	COG0601	transmembrane transport
THEMA_04460	COG1312	Catalyzes the dehydration of D-mannonate
THEMA_04465	COG0246	Mannitol dehydrogenase
THEMA_04475	COG0800	Aldolase
THEMA_04480	COG1414	Transcriptional regulator
THEMA_04485	COG1904	glucuronate isomerase
THEMA_04500	COG3693	PFAM glycoside hydrolase, family 10
THEMA_04505	COG0601	transmembrane transport
THEMA_04510	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_04515	COG0444	Belongs to the ABC transporter superfamily
THEMA_04520	COG4608	Belongs to the ABC transporter superfamily
THEMA_04525	COG0747	negative chemotaxis
THEMA_04530	COG3661	Belongs to the glycosyl hydrolase 67 family
THEMA_04550	COG0370	Transporter of a GTP-driven Fe(2 ) uptake system
THEMA_04550	COG1918	ferrous iron import across plasma membrane
THEMA_04560	COG2006	4fe-4S ferredoxin, iron-sulfur binding domain protein
THEMA_04570	COG0675	Transposase, IS605 OrfB family
THEMA_04585	COG1132	(ABC) transporter
THEMA_04590	COG0006	proline dipeptidase activity
THEMA_04595	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
THEMA_04595	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
THEMA_04600	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
THEMA_04610	COG0720	synthase
THEMA_04615	COG2199	diguanylate cyclase activity
THEMA_04615	COG2206	PFAM metal-dependent phosphohydrolase, HD sub domain
THEMA_04620	COG1618	nucleotide phosphatase activity, acting on free nucleotides
THEMA_04645	COG4166	transmembrane transport
THEMA_04650	COG0601	transmembrane transport
THEMA_04660	COG0444	Belongs to the ABC transporter superfamily
THEMA_04665	COG4608	Belongs to the ABC transporter superfamily
THEMA_04675	COG1472	Belongs to the glycosyl hydrolase 3 family
THEMA_04685	COG0840	transmembrane signaling receptor activity
THEMA_04690	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
THEMA_04695	COG1993	acr, cog1993
THEMA_04700	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
THEMA_04705	COG1028	Short-chain dehydrogenase reductase Sdr
THEMA_04710	COG1013	pyruvate-flavodoxin oxidoreductase activity
THEMA_04715	COG0674	pyruvate-flavodoxin oxidoreductase activity
THEMA_04720	COG1144	Oxidoreductase
THEMA_04725	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
THEMA_04760	COG1878	Catalyzes the hydrolysis of N-formyl-L-kynurenine to L- kynurenine, the second step in the kynurenine pathway of tryptophan degradation
THEMA_04770	COG4948	Mandelate Racemase Muconate Lactonizing
THEMA_04780	COG0737	Belongs to the 5'-nucleotidase family
THEMA_04790	COG0622	Phosphoesterase
THEMA_04795	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)
THEMA_04800	COG1278	Cold shock
THEMA_04810	COG0432	Pfam Uncharacterised protein family UPF0047
THEMA_04820	COG2894	cell division
THEMA_04825	COG1067	ATP-dependent peptidase activity
THEMA_04830	COG0619	Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates
THEMA_04835	COG0039	L-malate dehydrogenase activity
THEMA_04845	COG1515	deoxyribonuclease V activity
THEMA_04860	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
THEMA_04865	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
THEMA_04870	COG1514	Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'- phosphomonoester
THEMA_04875	COG0468	Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage
THEMA_04885	COG1418	mRNA catabolic process
THEMA_04890	COG1609	Transcriptional regulator
THEMA_04905	COG0395	ABC-type sugar transport system, permease component
THEMA_04930	COG3459	Glycosyltransferase 36 associated
THEMA_04935	COG2723	6-phospho-beta-galactosidase activity
THEMA_04940	COG1653	transport
THEMA_04960	COG1172	Belongs to the binding-protein-dependent transport system permease family
THEMA_04965	COG1129	ABC transporter
THEMA_04970	COG1940	carbohydrate kinase activity
THEMA_04980	COG1523	belongs to the glycosyl hydrolase 13 family
THEMA_05005	COG0366	Alpha amylase catalytic
THEMA_05010	COG2182	Extracellular solute-binding protein
THEMA_05015	COG1175	transmembrane transport
THEMA_05020	COG3833	ABC-type maltose transport systems, permease component
THEMA_05025	COG0366	Alpha amylase catalytic
THEMA_05030	COG1486	melibiose metabolic process
THEMA_05055	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
THEMA_05055	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
THEMA_05060	COG0307	riboflavin synthase, alpha
THEMA_05065	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
THEMA_05065	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
THEMA_05080	COG0330	HflC and HflK could
THEMA_05085	COG0330	HflC and HflK could
THEMA_05090	COG1059	Responsible for removing an oxidatively damaged form of guanine (7,8-dihydro-8-oxoguanine 7-oxoG) from DNA. Also nicks DNA at apurinic apyrimidinic sites (AP sites)
THEMA_05105	COG2059	Chromate
THEMA_05110	COG0525	valine-tRNA ligase activity
THEMA_05135	COG1353	crispr-associated protein
THEMA_05145	COG1337	RAMP superfamily
THEMA_05175	COG0484	heat shock protein binding
THEMA_05205	COG1518	maintenance of DNA repeat elements
THEMA_05210	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
THEMA_05235	COG3337	CRISPR-associated protein (Cas_Cmr5)
THEMA_05275	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
THEMA_05280	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
THEMA_05285	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
THEMA_05290	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
THEMA_05295	COG0165	Argininosuccinate lyase
THEMA_05300	COG0137	argininosuccinate synthase activity
THEMA_05315	COG0779	Required for maturation of 30S ribosomal subunits
THEMA_05320	COG0195	Participates in both transcription termination and antitermination
THEMA_05325	COG0735	belongs to the Fur family
THEMA_05355	COG3635	2,3-bisphosphoglycerate-independent phosphoglycerate mutase activity
THEMA_05375	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)
THEMA_05380	COG1722	exodeoxyribonuclease VII activity
THEMA_05385	COG1570	exodeoxyribonuclease VII activity
THEMA_05390	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
THEMA_05395	COG2759	Belongs to the formate--tetrahydrofolate ligase family
THEMA_05400	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
THEMA_05410	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
THEMA_05420	COG0556	nucleotide-excision repair
THEMA_05455	COG3426	butyrate kinase activity
THEMA_05460	COG0280	phosphate acetyltransferase
THEMA_05465	COG3426	butyrate kinase activity
THEMA_05470	COG0556	nucleotide-excision repair
THEMA_05480	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
THEMA_05485	COG4608	Belongs to the ABC transporter superfamily
THEMA_05495	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_05500	COG0601	transmembrane transport
THEMA_05520	COG0667	Aldo Keto reductase
THEMA_05525	COG0647	UMP catabolic process
THEMA_05530	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
THEMA_05535	COG1939	Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc)
THEMA_05550	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
THEMA_05555	COG0305	Participates in initiation and elongation during chromosome replication
THEMA_05565	COG0704	Plays a role in the regulation of phosphate uptake
THEMA_05570	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
THEMA_05580	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
THEMA_05585	COG2255	four-way junction helicase activity
THEMA_05595	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
THEMA_05610	COG1394	ATPase activity, coupled to movement of substances
THEMA_05620	COG1028	Short-chain dehydrogenase reductase Sdr
THEMA_05645	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
THEMA_05650	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
THEMA_05655	COG1162	GTPase activity
THEMA_05665	COG0820	rRNA (adenine-C2-)-methyltransferase activity
THEMA_05670	COG0812	UDP-N-acetylmuramate dehydrogenase activity
THEMA_05675	COG1739	Uncharacterized protein family UPF0029
THEMA_05695	COG0391	Required for morphogenesis under gluconeogenic growth conditions
THEMA_05705	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
THEMA_05710	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
THEMA_05715	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
THEMA_05725	COG1368	sulfuric ester hydrolase activity
THEMA_05735	COG0534	Mate efflux family protein
THEMA_05750	COG0436	Aminotransferase
THEMA_05770	COG0301	tRNA thio-modification
THEMA_05790	COG2052	Domain of unknown function (DUF370)
THEMA_05795	COG0194	GDP metabolic process
THEMA_05805	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
THEMA_05810	COG1376	ErfK ybiS ycfS ynhG family protein
THEMA_05815	COG1185	polyribonucleotide nucleotidyltransferase activity
THEMA_05820	COG0254	rRNA binding
THEMA_05825	COG1278	Cold shock
THEMA_05830	COG3437	response regulator, receiver
THEMA_05880	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
THEMA_05910	COG2115	Belongs to the xylose isomerase family
THEMA_05915	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
THEMA_05925	COG2813	Specifically methylates the guanine in position
THEMA_05930	COG1122	ATPase activity
THEMA_05935	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
THEMA_05940	COG0242	peptide deformylase activity
THEMA_05955	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
THEMA_05970	COG0745	RESPONSE REGULATOR receiver
THEMA_05975	COG5002	protein histidine kinase activity
THEMA_05990	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
THEMA_06005	COG1713	HD superfamily hydrolase involved in NAD metabolism
THEMA_06020	COG0157	Belongs to the NadC ModD family
THEMA_06025	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
THEMA_06030	COG1712	Catalyzes the reversible NADPH-dependent reductive amination of L-2-amino-6-oxopimelate, the acyclic form of L- tetrahydrodipicolinate, to generate the meso compound, D,L-2,6- diaminopimelate
THEMA_06035	COG1781	'de novo' pyrimidine nucleobase biosynthetic process
THEMA_06035	COG0540	Belongs to the ATCase OTCase family
THEMA_06040	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
THEMA_06050	COG0543	2 iron, 2 sulfur cluster binding
THEMA_06055	COG4555	ABC transporter
THEMA_06065	COG0419	ATPase involved in DNA repair
THEMA_06070	COG0420	3'-5' exonuclease activity
THEMA_06080	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
THEMA_06085	COG0802	atpase or kinase
THEMA_06100	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
THEMA_06105	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)
THEMA_06110	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
THEMA_06115	COG0193	aminoacyl-tRNA hydrolase activity
THEMA_06125	COG3250	beta-galactosidase activity
THEMA_06130	COG0481	GTPase activity
THEMA_06140	COG0584	glycerophosphoryl diester phosphodiesterase
THEMA_06150	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
THEMA_06150	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
THEMA_06155	COG1406	Chemotaxis phosphatase CheX
THEMA_06170	COG0356	it plays a direct role in the translocation of protons across the membrane
THEMA_06175	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
THEMA_06180	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
THEMA_06185	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
THEMA_06190	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
THEMA_06195	COG0224	Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is believed to be important in regulating ATPase activity and the flow of protons through the CF(0) complex
THEMA_06200	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
THEMA_06205	COG0355	proton-transporting ATP synthase activity, rotational mechanism
THEMA_06210	COG1307	EDD domain protein, DegV family
THEMA_06215	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
THEMA_06220	COG1530	ribonuclease E activity
THEMA_06230	COG0528	UMP kinase activity
THEMA_06235	COG0477	Major facilitator Superfamily
THEMA_06240	COG1827	regulation of RNA biosynthetic process
THEMA_06245	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
THEMA_06260	COG1595	DNA-templated transcription, initiation
THEMA_06270	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
THEMA_06275	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
THEMA_06290	COG0489	protein tyrosine kinase activity
THEMA_06305	COG0290	IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins
THEMA_06340	COG2199	diguanylate cyclase activity
THEMA_06340	COG2203	Gaf domain
THEMA_06355	COG2379	hydroxypyruvate reductase
THEMA_06360	COG1040	competence protein
THEMA_06390	COG0653	protein targeting
THEMA_06400	COG1189	Ribosomal RNA methyltransferase RrmJ FtsJ
THEMA_06410	COG0101	tRNA pseudouridine synthase activity
THEMA_06420	COG0681	Belongs to the peptidase S26 family
THEMA_06425	COG0335	large ribosomal subunit rRNA binding
THEMA_06430	COG4752	Belongs to the RNA methyltransferase TrmD family
THEMA_06435	COG0336	Belongs to the RNA methyltransferase TrmD family
THEMA_06440	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
THEMA_06445	COG1837	Belongs to the UPF0109 family
THEMA_06450	COG0228	four-way junction DNA binding
THEMA_06455	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
THEMA_06460	COG1254	Belongs to the acylphosphatase family
THEMA_06475	COG0343	queuine tRNA-ribosyltransferase activity
THEMA_06485	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
THEMA_06495	COG2003	Belongs to the UPF0758 family
THEMA_06515	COG1477	protein flavinylation
THEMA_06525	COG2078	PFAM AMMECR1 domain protein
THEMA_06530	COG3872	metal-dependent enzyme
THEMA_06535	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
THEMA_06540	COG1086	Polysaccharide biosynthesis protein
THEMA_06545	COG1078	dGTPase activity
THEMA_06550	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
THEMA_06550	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
THEMA_06555	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
THEMA_06570	COG4786	Flagellar basal body rod
THEMA_06585	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
THEMA_06590	COG1706	bacterial-type flagellum-dependent cell motility
THEMA_06600	COG1032	radical SAM domain protein
THEMA_06625	COG0644	oxidoreductase
THEMA_06630	COG2025	fatty acid beta-oxidation using acyl-CoA dehydrogenase
THEMA_06635	COG2086	electron transfer activity
THEMA_06650	COG1575	Belongs to the MenA family. Type 1 subfamily
THEMA_06655	COG1959	2 iron, 2 sulfur cluster binding
THEMA_06685	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
THEMA_06695	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
THEMA_06700	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
THEMA_06705	COG2171	N-acyltransferase activity
THEMA_06715	COG0019	diaminopimelate decarboxylase activity
THEMA_06720	COG1473	amidohydrolase
THEMA_06735	COG1323	Belongs to the UPF0348 family
THEMA_06740	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
THEMA_06740	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
THEMA_06745	COG2738	Putative neutral zinc metallopeptidase
THEMA_06755	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
THEMA_06760	COG1480	7TM receptor with intracellular HD hydrolase
THEMA_06765	COG1702	phosphate starvation-inducible protein PhoH
THEMA_06775	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
THEMA_06780	COG0049	tRNA binding
THEMA_06785	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
THEMA_06790	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
THEMA_06795	COG0051	transcription antitermination factor activity, RNA binding
THEMA_06800	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
THEMA_06805	COG0088	Forms part of the polypeptide exit tunnel
THEMA_06810	COG0089	rRNA binding
THEMA_06815	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
THEMA_06820	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
THEMA_06825	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
THEMA_06830	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
THEMA_06835	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
THEMA_06840	COG0255	Belongs to the universal ribosomal protein uL29 family
THEMA_06845	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
THEMA_06850	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
THEMA_06855	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
THEMA_06860	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
THEMA_06865	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
THEMA_06870	COG0096	One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
THEMA_06875	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
THEMA_06880	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
THEMA_06885	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
THEMA_06890	COG1841	ribosomal large subunit assembly
THEMA_06895	COG0200	Binds to the 23S rRNA
THEMA_06900	COG0201	protein transport
THEMA_06905	COG0563	adenylate kinase activity
THEMA_06915	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
THEMA_06920	COG0257	Belongs to the bacterial ribosomal protein bL36 family
THEMA_06925	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
THEMA_06930	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
THEMA_06935	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
THEMA_06940	COG0202	RNA polymerase activity
THEMA_06945	COG0203	ribosomal protein L17
THEMA_06950	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
THEMA_06955	COG1940	carbohydrate kinase activity
THEMA_06960	COG1307	EDD domain protein, DegV family
THEMA_06970	COG3437	response regulator, receiver
THEMA_06980	COG0218	Necessary for normal cell division and for the maintenance of normal septation
THEMA_06985	COG2109	Required for both de novo synthesis of the corrin ring for the assimilation of exogenous corrinoids. Participates in the adenosylation of a variety of incomplete and complete corrinoids
THEMA_06990	COG2313	pseudouridylate synthase activity
THEMA_06995	COG0230	Belongs to the bacterial ribosomal protein bL34 family
THEMA_07000	COG0594	ribonuclease P activity
THEMA_07005	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
THEMA_07010	COG0706	membrane insertase activity
THEMA_07025	COG0261	This protein binds to 23S rRNA in the presence of protein L20
THEMA_07035	COG0211	Belongs to the bacterial ribosomal protein bL27 family
THEMA_07040	COG3601	Mediates riboflavin uptake, may also transport FMN and roseoflavin. Probably a riboflavin-binding protein that interacts with the energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates. The substrates themselves are bound by transmembrane, not extracytoplasmic soluble proteins
THEMA_07045	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
THEMA_07050	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
THEMA_07055	COG0358	DNA primase activity
THEMA_07060	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
THEMA_07065	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
THEMA_07080	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
THEMA_07085	COG1160	GTP binding
THEMA_07095	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
THEMA_07100	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
THEMA_07105	COG1366	Belongs to the anti-sigma-factor antagonist family
THEMA_07110	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)
THEMA_07115	COG2050	protein possibly involved in aromatic compounds catabolism
THEMA_07115	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
THEMA_07125	COG1543	Belongs to the glycosyl hydrolase 57 family
THEMA_07130	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
THEMA_07160	COG1954	Regulates expression of the glpD operon. In the presence of glycerol 3-phosphate (G3P) causes antitermination of transcription of glpD at the inverted repeat of the leader region to enhance its transcription. Binds and stabilizes glpD leader mRNA
THEMA_07170	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
THEMA_07175	COG0840	transmembrane signaling receptor activity
THEMA_07180	COG2344	Modulates transcription in response to changes in cellular NADH NAD( ) redox state
THEMA_07195	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
THEMA_07210	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
THEMA_07225	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
THEMA_07225	COG1213	nucleotidyl transferase
THEMA_07230	COG0396	ATPase activity
THEMA_07235	COG0719	Fe-S assembly protein
THEMA_07245	COG0483	inositol monophosphate 1-phosphatase activity
THEMA_07250	COG1621	beta-fructofuranosidase activity
THEMA_07265	COG2342	PFAM TM1410 hypothetical-related protein
THEMA_07290	COG0438	transferase activity, transferring glycosyl groups
THEMA_07310	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
THEMA_07315	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
THEMA_07325	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
THEMA_07330	COG0575	Belongs to the CDS family
THEMA_07335	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
THEMA_07345	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
THEMA_07350	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
THEMA_07360	COG0542	response to heat
THEMA_07380	COG2264	protein methyltransferase activity
THEMA_07385	COG0742	ribosomal rna small subunit methyltransferase
THEMA_07390	COG0237	dephospho-CoA kinase activity
THEMA_07400	COG0166	Belongs to the GPI family
THEMA_07405	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
THEMA_07410	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
THEMA_07430	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)
THEMA_07435	COG1177	transmembrane transport
THEMA_07440	COG1176	ABC-type spermidine putrescine transport system, permease component I
THEMA_07445	COG3842	ATPase activity
THEMA_07450	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
THEMA_07465	COG0406	alpha-ribazole phosphatase activity
THEMA_07475	COG0822	iron-sulfur transferase activity
THEMA_07480	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
THEMA_07490	COG0719	Fe-S assembly protein
THEMA_07495	COG0396	ATPase activity
THEMA_07510	COG1677	Flagellar hook-basal body complex protein FliE
THEMA_07520	COG1815	bacterial-type flagellum-dependent cell motility
THEMA_07525	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
THEMA_07535	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)
THEMA_07540	COG0745	RESPONSE REGULATOR receiver
THEMA_07545	COG3852	Histidine kinase
THEMA_07570	COG0516	GMP reductase activity
THEMA_07570	COG0517	IMP dehydrogenase activity
THEMA_07585	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)
THEMA_07590	COG2267	carboxylic ester hydrolase activity
THEMA_07595	COG0628	permease
THEMA_07605	COG0517	IMP dehydrogenase activity
THEMA_07605	COG0516	GMP reductase activity
THEMA_07610	COG0612	Peptidase, M16
THEMA_07620	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
THEMA_07705	COG1132	(ABC) transporter
THEMA_07710	COG4555	ABC transporter
THEMA_07725	COG0641	radical SAM
THEMA_07740	COG1598	PFAM Uncharacterised protein family UPF0150
THEMA_07750	COG1132	(ABC) transporter
THEMA_07755	COG1132	(ABC) transporter
THEMA_07775	COG0457	Tetratricopeptide repeat
THEMA_07780	COG1598	PFAM Uncharacterised protein family UPF0150
THEMA_07790	COG1598	PFAM Uncharacterised protein family UPF0150
THEMA_07795	COG1132	(ABC) transporter
THEMA_07830	COG4555	ABC transporter
THEMA_07850	COG0667	Aldo Keto reductase
THEMA_07860	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
THEMA_07870	COG2226	methyltransferase
THEMA_07875	COG0489	protein tyrosine kinase activity
THEMA_07880	COG2894	cell division
THEMA_07895	COG0731	radical SAM domain protein
THEMA_07895	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
THEMA_07900	COG0662	Cupin 2, conserved barrel domain protein
THEMA_07920	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
THEMA_07930	COG1486	melibiose metabolic process
THEMA_07945	COG1193	negative regulation of DNA recombination
THEMA_07955	COG3842	ATPase activity
THEMA_07970	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)
THEMA_07975	COG0154	amidase activity
THEMA_07985	COG0626	cystathionine gamma-synthase activity
THEMA_07990	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
THEMA_08015	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
THEMA_08030	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
THEMA_08035	COG0704	Plays a role in the regulation of phosphate uptake
THEMA_08040	COG0745	RESPONSE REGULATOR receiver
THEMA_08055	COG1132	(ABC) transporter
THEMA_08060	COG0436	Aminotransferase
THEMA_08065	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
THEMA_08070	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
THEMA_08070	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
THEMA_08085	COG0151	Belongs to the GarS family
THEMA_08090	COG0138	bifunctional purine biosynthesis protein purh
THEMA_08095	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
THEMA_08100	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
THEMA_08105	COG0046	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
THEMA_08110	COG0047	phosphoribosylformylglycinamidine synthase activity
THEMA_08115	COG1828	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
THEMA_08120	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
THEMA_08135	COG0012	GTP binding
THEMA_08145	COG0210	DNA helicase
THEMA_08170	COG3842	ATPase activity
THEMA_08175	COG0383	alpha-mannosidase activity
THEMA_08180	COG0438	transferase activity, transferring glycosyl groups
THEMA_08185	COG0463	Glycosyl transferase, family 2
THEMA_08200	COG0747	negative chemotaxis
THEMA_08205	COG2152	Converts 4-O-beta-D-mannopyranosyl-D-glucopyranose (Man- Glc) to mannose 1-phosphate (Man1P) and glucose
THEMA_08210	COG1940	carbohydrate kinase activity
THEMA_08215	COG4166	transmembrane transport
THEMA_08220	COG0601	transmembrane transport
THEMA_08225	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_08230	COG0444	Belongs to the ABC transporter superfamily
THEMA_08235	COG4608	Belongs to the ABC transporter superfamily
THEMA_08250	COG0649	NAD binding
THEMA_08255	COG0649	NAD binding
THEMA_08255	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
THEMA_08260	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
THEMA_08270	COG1008	NDH-1 shuttles electrons from NAD(P)H, 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 plastoquinone. 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
THEMA_08275	COG0651	ATP synthesis coupled electron transport
THEMA_08285	COG2111	Na H antiporter
THEMA_08285	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
THEMA_08300	COG2212	antiporter activity
THEMA_08305	COG1863	multisubunit Na H antiporter MnhE subunit
THEMA_08310	COG2182	Extracellular solute-binding protein
THEMA_08315	COG1175	transmembrane transport
THEMA_08320	COG3833	ABC-type maltose transport systems, permease component
THEMA_08345	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_08350	COG4608	Belongs to the ABC transporter superfamily
THEMA_08360	COG0444	Belongs to the ABC transporter superfamily
THEMA_08365	COG3250	beta-galactosidase activity
THEMA_08370	COG3345	alpha-galactosidase
THEMA_08375	COG1085	galactose-1-phosphate uridylyltransferase
THEMA_08380	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
THEMA_08400	COG0628	permease
THEMA_08410	COG1803	Methylglyoxal synthase
THEMA_08420	COG0667	Aldo Keto reductase
THEMA_08425	COG1196	nuclear chromosome segregation
THEMA_08430	COG0494	nUDIX hydrolase
THEMA_08440	COG1516	flagellar protein fliS
THEMA_08445	COG0456	acetyltransferase
THEMA_08450	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
THEMA_08475	COG1151	hydroxylamine reductase activity
THEMA_08490	COG1028	Short-chain dehydrogenase reductase Sdr
THEMA_08495	COG0058	SHG alpha-glucan phosphorylase activity
THEMA_08505	COG0635	Involved in the biosynthesis of porphyrin-containing compound
THEMA_08510	COG1013	pyruvate-flavodoxin oxidoreductase activity
THEMA_08520	COG2199	diguanylate cyclase activity
THEMA_08525	COG2220	Zn-dependent hydrolases of the beta-lactamase fold
THEMA_08530	COG2239	Acts as a magnesium transporter
THEMA_08545	COG0010	Belongs to the arginase family
THEMA_08560	COG1983	PspC domain protein
THEMA_08565	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
THEMA_08570	COG0363	glucosamine-6-phosphate deaminase activity
THEMA_08580	COG0444	Belongs to the ABC transporter superfamily
THEMA_08590	COG0747	negative chemotaxis
THEMA_08610	COG0840	transmembrane signaling receptor activity
THEMA_08630	COG0840	transmembrane signaling receptor activity
THEMA_08640	COG0785	Cytochrome C biogenesis protein
THEMA_08645	COG0517	IMP dehydrogenase activity
THEMA_08645	COG0516	GMP reductase activity
THEMA_08685	COG0714	Associated with various cellular activities
THEMA_08690	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
THEMA_08695	COG0280	phosphate acetyltransferase
THEMA_08700	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
THEMA_08730	COG1345	Required for morphogenesis and for the elongation of the flagellar filament by facilitating polymerization of the flagellin monomers at the tip of growing filament. Forms a capping structure, which prevents flagellin subunits (transported through the central channel of the flagellum) from leaking out without polymerization at the distal end
THEMA_08740	COG1175	transmembrane transport
THEMA_08835	COG0571	ribonuclease III activity
THEMA_08840	COG0622	Phosphoesterase
THEMA_08850	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
THEMA_08860	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
THEMA_08865	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
THEMA_08870	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
THEMA_08880	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
THEMA_08885	COG0018	arginyl-trna synthetase
THEMA_08900	COG0124	histidyl-tRNA synthetase
THEMA_08905	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
THEMA_08915	COG0569	domain protein
THEMA_08930	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
THEMA_08930	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
THEMA_08935	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
THEMA_08940	COG1371	PFAM Archease protein family (DUF101 UPF0211)
THEMA_08945	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
THEMA_08950	COG1366	Belongs to the anti-sigma-factor antagonist family
THEMA_08955	COG0698	ribose 5-phosphate isomerase
THEMA_08960	COG2264	protein methyltransferase activity
THEMA_08970	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
THEMA_08995	COG1070	Carbohydrate kinase
THEMA_09005	COG4952	isomerase
THEMA_09015	COG1349	DNA-binding transcription factor activity
THEMA_09020	COG1486	melibiose metabolic process
THEMA_09025	COG0747	negative chemotaxis
THEMA_09030	COG0601	transmembrane transport
THEMA_09035	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
THEMA_09040	COG0444	Belongs to the ABC transporter superfamily
THEMA_09045	COG4608	Belongs to the ABC transporter superfamily
THEMA_09050	COG3250	beta-galactosidase activity
THEMA_09065	COG2359	stage V sporulation protein S
THEMA_09075	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
THEMA_09080	COG1324	tolerance protein
THEMA_09090	COG1137	ATPase activity
THEMA_09100	COG1596	polysaccharide export
THEMA_09100	COG1555	photosystem II stabilization
THEMA_09125	COG0850	regulation of cytokinetic process
THEMA_09145	COG3705	Required for the first step of histidine biosynthesis. May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
THEMA_09155	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
THEMA_09160	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
THEMA_09170	COG0118	IGPS catalyzes the conversion of PRFAR and glutamine to IGP, AICAR and glutamate. The HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of IGP and AICAR
THEMA_09180	COG0107	imidazoleglycerol-phosphate synthase activity
THEMA_09185	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
THEMA_09185	COG0140	phosphoribosyl-ATP diphosphatase activity
THEMA_09190	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
THEMA_09195	COG0662	Cupin 2, conserved barrel domain protein
THEMA_09195	COG0836	Belongs to the mannose-6-phosphate isomerase type 2 family
THEMA_09220	COG1131	(ABC) transporter
THEMA_09255	COG2814	Major facilitator Superfamily
THEMA_09280	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
THEMA_09310	COG0656	L-ascorbic acid biosynthetic process
THEMA_09320	COG0667	Aldo Keto reductase
THEMA_09325	COG2207	Transcriptional regulator
THEMA_09355	COG1895	HEPN domain
THEMA_09400	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
THEMA_09420	COG3234	Protein of unknown function (DUF1175)
THEMA_09430	COG2373	Large extracellular alpha-helical protein
THEMA_09435	COG0425	Belongs to the sulfur carrier protein TusA family
THEMA_09440	COG2391	methyltransferase activity
THEMA_09460	COG0425	Belongs to the sulfur carrier protein TusA family
THEMA_09480	COG0840	transmembrane signaling receptor activity
THEMA_09485	COG3706	GGDEF domain
THEMA_09510	COG4974	Belongs to the 'phage' integrase family
THEMA_09515	COG1606	tRNA processing
THEMA_09520	COG1691	(AIR) carboxylase
THEMA_09525	COG1641	Involved in the biosynthesis of a nickel-pincer cofactor ((SCS)Ni(II) pincer complex). Binds Ni(2 ), and functions in nickel delivery to pyridinium-3,5-bisthiocarboxylic acid mononucleotide (P2TMN), to form the mature cofactor. Is thus probably required for the activation of nickel-pincer cofactor- dependent enzymes
THEMA_09540	COG1704	LemA family
THEMA_09545	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
THEMA_09550	COG1869	D-ribose catabolic process
THEMA_09555	COG1879	ABC-type sugar transport system periplasmic component
THEMA_09565	COG1129	ABC transporter
THEMA_09570	COG1172	Belongs to the binding-protein-dependent transport system permease family
THEMA_09575	COG3959	Transketolase, thiamine diphosphate binding domain
THEMA_09580	COG3958	Transketolase
THEMA_09585	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
THEMA_09630	COG0174	glutamine synthetase
THEMA_09655	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
THEMA_09670	COG0402	S-adenosylhomocysteine deaminase activity
THEMA_09675	COG0516	GMP reductase activity
THEMA_09675	COG0517	IMP dehydrogenase activity
THEMA_09680	COG1055	Involved in arsenical resistance. Thought to form the channel of an arsenite pump
THEMA_09705	COG3864	Putative metallopeptidase domain
THEMA_09715	COG1141	Ferredoxin