locus-tag	class	description
VYA_00020	COG0592	DNA-directed DNA polymerase activity
VYA_00040	COG0187	DNA topoisomerase II activity
VYA_00050	COG0071	Belongs to the small heat shock protein (HSP20) family
VYA_00060	COG3977	Valine--pyruvate aminotransferase
VYA_00100	COG4964	Belongs to the GSP D family
VYA_00250	COG2119	membrane
VYA_00270	COG0425	Belongs to the sulfur carrier protein TusA family
VYA_00300	COG0604	alcohol dehydrogenase
VYA_00310	COG0183	Belongs to the thiolase family
VYA_00330	COG1739	Uncharacterized protein family UPF0029
VYA_00340	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
VYA_00360	COG0583	DNA-binding transcription factor activity
VYA_00370	COG0059	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate
VYA_00380	COG2960	long-chain fatty acid transporting porin activity
VYA_00390	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
VYA_00400	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
VYA_00410	COG1309	transcriptional regulator
VYA_00460	COG0747	negative chemotaxis
VYA_00470	COG0601	transmembrane transport
VYA_00480	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
VYA_00550	COG1609	Transcriptional regulator
VYA_00560	COG0583	DNA-binding transcription factor activity
VYA_00570	COG2076	Multidrug Resistance protein
VYA_00590	COG0129	dihydroxy-acid dehydratase activity
VYA_00600	COG3265	gluconokinase activity
VYA_00610	COG2610	gluconate transmembrane transporter activity
VYA_00620	COG0800	Aldolase
VYA_00630	COG0251	oxidation-reduction process
VYA_00650	COG1301	dicarboxylic acid transport
VYA_00670	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
VYA_00680	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
VYA_00700	COG1522	sequence-specific DNA binding
VYA_00740	COG0589	response to stress
VYA_00750	COG1528	Iron-storage protein
VYA_00770	COG2081	HI0933 family
VYA_00780	COG5001	Diguanylate cyclase
VYA_00780	COG3300	MHYT domain
VYA_00800	COG1322	Protein conserved in bacteria
VYA_00820	COG3165	ubiquinone biosynthetic process from chorismate
VYA_00850	COG1826	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes
VYA_00860	COG0805	protein transport
VYA_00870	COG0084	hydrolase, TatD family'
VYA_00900	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
VYA_00900	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
VYA_00910	COG0218	Necessary for normal cell division and for the maintenance of normal septation
VYA_00970	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
VYA_00990	COG2204	response regulator
VYA_01000	COG3852	Histidine kinase
VYA_01020	COG0174	glutamine synthetase
VYA_01030	COG1217	gtp-binding protein TYPA
VYA_01070	COG1490	D-aminoacyl-tRNA deacylase activity
VYA_01080	COG0456	acetyltransferase
VYA_01120	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
VYA_01130	COG3031	protein transport across the cell outer membrane
VYA_01150	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
VYA_01160	COG1459	type II secretion system
VYA_01170	COG2165	general secretion pathway protein
VYA_01180	COG2165	general secretion pathway protein
VYA_01190	COG2165	general secretion pathway protein
VYA_01200	COG4795	General secretion pathway protein
VYA_01210	COG3156	type II secretion system protein K
VYA_01220	COG3297	Involved in a type II secretion system (T2SS, formerly general secretion pathway, GSP) for the export of proteins
VYA_01230	COG3149	Involved in a type II secretion system (T2SS, formerly general secretion pathway, GSP) for the export of proteins
VYA_01250	COG1218	3'(2'),5'-bisphosphate nucleotidase
VYA_01260	COG0494	nUDIX hydrolase
VYA_01280	COG1040	competence protein
VYA_01320	COG2183	response to ionizing radiation
VYA_01370	COG2233	PERMEase
VYA_01380	COG0823	Involved in the tonB-independent uptake of proteins
VYA_01380	COG1506	peptidase
VYA_01380	COG4946	Tricorn protease homolog
VYA_01390	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)
VYA_01400	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
VYA_01410	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
VYA_01420	COG1758	RNA polymerase activity
VYA_01430	COG0194	GDP metabolic process
VYA_01470	COG0848	biopolymer transport protein
VYA_01480	COG0811	peptide transport
VYA_01520	COG4174	ABC transporter (Permease)
VYA_01530	COG4239	(ABC) transporter, permease
VYA_01540	COG0747	negative chemotaxis
VYA_01550	COG0444	Belongs to the ABC transporter superfamily
VYA_01560	COG4608	Belongs to the ABC transporter superfamily
VYA_01610	COG2246	polysaccharide biosynthetic process
VYA_01630	COG1561	YicC-like family, N-terminal region
VYA_01640	COG0689	Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates
VYA_01650	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
VYA_01660	COG1560	Kdo2-lipid A biosynthetic process
VYA_01670	COG1309	transcriptional regulator
VYA_01680	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
VYA_01700	COG0227	Belongs to the bacterial ribosomal protein bL28 family
VYA_01750	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
VYA_01770	COG0463	Glycosyl transferase, family 2
VYA_01780	COG0859	PFAM glycosyl transferase family 9
VYA_01790	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
VYA_01800	COG3642	lipopolysaccharide core region biosynthetic process
VYA_01860	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_01870	COG1021	2,3-dihydroxybenzoate-AMP ligase
VYA_01890	COG0463	Glycosyl transferase, family 2
VYA_01920	COG1519	Transferase
VYA_01930	COG0859	PFAM glycosyl transferase family 9
VYA_01940	COG1560	Kdo2-lipid A biosynthetic process
VYA_01960	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
VYA_02050	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
VYA_02160	COG1215	transferase activity, transferring glycosyl groups
VYA_02180	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
VYA_02200	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
VYA_02240	COG0149	triose-phosphate isomerase activity
VYA_02290	COG1494	fructose-1,6-bisphosphatase
VYA_02300	COG3074	FtsZ-dependent cytokinesis
VYA_02310	COG0684	Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions
VYA_02320	COG1575	Belongs to the MenA family. Type 1 subfamily
VYA_02360	COG1609	Transcriptional regulator
VYA_02370	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
VYA_02380	COG0254	rRNA binding
VYA_02400	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
VYA_02410	COG0088	Forms part of the polypeptide exit tunnel
VYA_02430	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
VYA_02440	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
VYA_02490	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
VYA_02500	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
VYA_02510	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
VYA_02520	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
VYA_02530	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
VYA_02550	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
VYA_02580	COG1841	ribosomal large subunit assembly
VYA_02600	COG0201	protein transport
VYA_02610	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
VYA_02620	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
VYA_02640	COG0202	RNA polymerase activity
VYA_02650	COG0203	ribosomal protein L17
VYA_02670	COG0545	Peptidyl-prolyl cis-trans isomerase
VYA_02690	COG2153	protein acetylation
VYA_02700	COG0513	Belongs to the DEAD box helicase family
VYA_02720	COG0737	Belongs to the 5'-nucleotidase family
VYA_02730	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
VYA_02730	COG1648	precorrin-2 dehydrogenase activity
VYA_02760	COG0471	metal ion transport
VYA_02760	COG3273	potassium ion transport
VYA_02770	COG0529	Catalyzes the synthesis of activated sulfate
VYA_02810	COG4181	ATPase activity
VYA_02840	COG3054	Bacterial protein of unknown function (YtfJ_HI0045)
VYA_02860	COG0225	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
VYA_02870	COG0729	surface antigen
VYA_02890	COG2105	PFAM AIG2 family protein
VYA_02900	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
VYA_02910	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
VYA_02920	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
VYA_02930	COG0163	prenyltransferase activity
VYA_02940	COG4143	(ABC) transporter
VYA_02950	COG1178	ABC-type Fe3 transport system permease component
VYA_02960	COG3840	Part of the ABC transporter complex ThiBPQ involved in thiamine import. Responsible for energy coupling to the transport system
VYA_02990	COG2358	TRAP transporter, solute receptor (TAXI family
VYA_03030	COG0142	geranyltranstransferase activity
VYA_03040	COG0261	This protein binds to 23S rRNA in the presence of protein L20
VYA_03060	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
VYA_03080	COG2966	Psort location CytoplasmicMembrane, score
VYA_03090	COG3610	response to peptide
VYA_03100	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
VYA_03120	COG2967	ApaG domain
VYA_03140	COG1995	Catalyzes the NAD(P)-dependent oxidation of 4- (phosphohydroxy)-L-threonine (HTP) into 2-amino-3-oxo-4- (phosphohydroxy)butyric acid which spontaneously decarboxylates to form 3-amino-2-oxopropyl phosphate (AHAP)
VYA_03150	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
VYA_03160	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
VYA_03170	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
VYA_03210	COG0473	3-isopropylmalate dehydrogenase activity
VYA_03220	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)
VYA_03260	COG0583	DNA-binding transcription factor activity
VYA_03270	COG1022	Amp-dependent synthetase and ligase
VYA_03280	COG0028	Belongs to the TPP enzyme family
VYA_03300	COG3706	GGDEF domain
VYA_03320	COG0469	pyruvate kinase activity
VYA_03330	COG1349	DNA-binding transcription factor activity
VYA_03340	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
VYA_03390	COG4974	Belongs to the 'phage' integrase family
VYA_03490	COG0358	DNA primase activity
VYA_03500	COG1610	YqeY-like protein
VYA_03510	COG0828	Belongs to the bacterial ribosomal protein bS21 family
VYA_03520	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
VYA_03530	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
VYA_03540	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
VYA_03550	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
VYA_03590	COG3409	Peptidoglycan-binding domain 1 protein
VYA_03590	COG3267	Type II secretory pathway component ExeA
VYA_03610	COG4991	sh3 domain protein
VYA_03620	COG0306	phosphate transporter
VYA_03630	COG1392	Phosphate transport regulator
VYA_03640	COG3025	triphosphatase activity
VYA_03650	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
VYA_03670	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
VYA_03690	COG1538	Outer membrane efflux protein
VYA_03700	COG0494	nUDIX hydrolase
VYA_03710	COG3151	Protein conserved in bacteria
VYA_03730	COG3150	esterase
VYA_03750	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
VYA_03780	COG3105	Protein conserved in bacteria
VYA_03790	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
VYA_03820	COG0723	plastoquinol--plastocyanin reductase activity
VYA_03830	COG1290	Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis
VYA_03840	COG2857	Cytochrome c1
VYA_03850	COG0625	glutathione transferase activity
VYA_03860	COG2969	positive regulation of protein catabolic process
VYA_03870	COG2823	Periplasmic or secreted lipoprotein
VYA_03880	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
VYA_03910	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
VYA_03940	COG3116	cell division
VYA_03950	COG0768	penicillin binding
VYA_03960	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
VYA_03970	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
VYA_03980	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
VYA_04000	COG0772	Belongs to the SEDS family
VYA_04030	COG1589	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic. May control correct divisome assembly
VYA_04040	COG0849	cell division
VYA_04050	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
VYA_04060	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
VYA_04090	COG0494	nUDIX hydrolase
VYA_04110	COG0505	Belongs to the CarA family
VYA_04120	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
VYA_04130	COG0730	response to heat
VYA_04140	COG0583	DNA-binding transcription factor activity
VYA_04150	COG2860	membrane
VYA_04200	COG0493	'glutamate synthase
VYA_04210	COG0069	glutamate synthase activity
VYA_04210	COG0070	glutamate synthase
VYA_04210	COG0067	glutamate synthase
VYA_04230	COG0069	glutamate synthase activity
VYA_04230	COG0067	glutamate synthase
VYA_04230	COG0070	glutamate synthase
VYA_04240	COG1242	4 iron, 4 sulfur cluster binding
VYA_04250	COG0784	Response regulator, receiver
VYA_04250	COG2198	Histidine kinase
VYA_04250	COG5002	protein histidine kinase activity
VYA_04270	COG0745	RESPONSE REGULATOR receiver
VYA_04290	COG0684	Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions
VYA_04320	COG0083	homoserine kinase activity
VYA_04330	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
VYA_04360	COG0692	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
VYA_04390	COG1115	amino acid carrier protein
VYA_04450	COG3022	response to hydroperoxide
VYA_04460	COG0513	Belongs to the DEAD box helicase family
VYA_04490	COG0716	FMN binding
VYA_04500	COG4974	Belongs to the 'phage' integrase family
VYA_04510	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
VYA_04520	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
VYA_04530	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
VYA_04540	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
VYA_04550	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
VYA_04580	COG0667	Aldo Keto reductase
VYA_04600	COG3066	DNA modification
VYA_04620	COG3605	phosphoenolpyruvate-protein phosphotransferase activity
VYA_04630	COG0730	response to heat
VYA_04660	COG1283	sodium-dependent phosphate transmembrane transporter activity
VYA_04680	COG0583	DNA-binding transcription factor activity
VYA_04690	COG0640	Transcriptional regulator
VYA_04700	COG0268	Binds directly to 16S ribosomal RNA
VYA_04710	COG0728	peptidoglycan biosynthetic process
VYA_04720	COG0196	riboflavin kinase activity
VYA_04750	COG1047	Peptidyl-prolyl cis-trans
VYA_04760	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
VYA_04770	COG3279	Response regulator of the LytR AlgR family
VYA_04780	COG3275	phosphorelay sensor kinase activity
VYA_04790	COG1966	Carbon starvation protein
VYA_04830	COG2377	Catalyzes the specific phosphorylation of 1,6-anhydro-N- acetylmuramic acid (anhMurNAc) with the simultaneous cleavage of the 1,6-anhydro ring, generating MurNAc-6-P. Is required for the utilization of anhMurNAc either imported from the medium or derived from its own cell wall murein, and thus plays a role in cell wall recycling
VYA_04850	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
VYA_04860	COG1605	Chorismate mutase
VYA_04860	COG0287	Prephenate dehydrogenase
VYA_04870	COG0739	heme binding
VYA_04890	COG0488	(ABC) transporter
VYA_04920	COG1986	Phosphatase that hydrolyzes non-canonical purine nucleotides such as XTP and ITP to their respective diphosphate derivatives. Probably excludes non-canonical purines from DNA precursor pool, thus preventing their incorporation into DNA and avoiding chromosomal lesions
VYA_04930	COG0077	Prephenate dehydratase
VYA_04930	COG1605	Chorismate mutase
VYA_04940	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
VYA_04950	COG0741	lytic transglycosylase activity
VYA_04960	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
VYA_04970	COG0564	pseudouridine synthase activity
VYA_04980	COG1496	oxidoreductase activity
VYA_04990	COG0542	response to heat
VYA_05010	COG3335	DDE superfamily endonuclease
VYA_05130	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
VYA_05140	COG0826	peptidase U32
VYA_05150	COG2974	May be involved in recombination
VYA_05160	COG0745	RESPONSE REGULATOR receiver
VYA_05170	COG5002	protein histidine kinase activity
VYA_05190	COG0248	Ppx GppA phosphatase
VYA_05200	COG0248	Ppx GppA phosphatase
VYA_05210	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
VYA_05220	COG0573	inorganic phosphate transmembrane transporter activity
VYA_05230	COG0581	inorganic phosphate transmembrane transporter activity
VYA_05240	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
VYA_05250	COG0704	Plays a role in the regulation of phosphate uptake
VYA_05300	COG0450	alkyl hydroperoxide reductase
VYA_05310	COG0583	DNA-binding transcription factor activity
VYA_05320	COG2225	Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA
VYA_05340	COG0517	IMP dehydrogenase activity
VYA_05360	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
VYA_05370	COG0343	queuine tRNA-ribosyltransferase activity
VYA_05380	COG1862	Preprotein translocase
VYA_05390	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
VYA_05400	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
VYA_05410	COG0483	inositol monophosphate 1-phosphatase activity
VYA_05420	COG0565	Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA
VYA_05450	COG0822	iron-sulfur transferase activity
VYA_05460	COG0316	Belongs to the HesB IscA family
VYA_05490	COG0633	Ferredoxin
VYA_05500	COG2975	iron-sulfur cluster assembly
VYA_05560	COG0124	histidyl-tRNA synthetase
VYA_05570	COG2976	Protein conserved in bacteria
VYA_05580	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
VYA_05630	COG0517	IMP dehydrogenase activity
VYA_05630	COG0516	GMP reductase activity
VYA_05650	COG1584	GPR1 FUN34 yaaH family protein
VYA_05660	COG1115	amino acid carrier protein
VYA_05670	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
VYA_05680	COG0583	DNA-binding transcription factor activity
VYA_05690	COG2873	o-acetylhomoserine
VYA_05700	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
VYA_05800	COG2867	negative regulation of translational initiation
VYA_05810	COG2914	Belongs to the UPF0125 (RnfH) family
VYA_05820	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
VYA_05830	COG0497	DNA recombination
VYA_05850	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
VYA_05860	COG1301	dicarboxylic acid transport
VYA_05880	COG0484	heat shock protein binding
VYA_05930	COG2978	secondary active p-aminobenzoyl-glutamate transmembrane transporter activity
VYA_05940	COG0590	tRNA wobble adenosine to inosine editing
VYA_05970	COG0047	phosphoribosylformylglycinamidine synthase activity
VYA_05970	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
VYA_06010	COG2195	Cleaves the N-terminal amino acid of tripeptides
VYA_06020	COG2252	PERMEase
VYA_06030	COG2236	Acts on guanine, xanthine and to a lesser extent hypoxanthine
VYA_06040	COG1073	alpha beta
VYA_06070	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
VYA_06080	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
VYA_06090	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
VYA_06090	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
VYA_06150	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
VYA_06160	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
VYA_06180	COG0142	geranyltranstransferase activity
VYA_06200	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
VYA_06220	COG0301	tRNA thio-modification
VYA_06220	COG0607	Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS
VYA_06240	COG0583	DNA-binding transcription factor activity
VYA_06260	COG2363	Small membrane protein
VYA_06280	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
VYA_06290	COG1611	Belongs to the LOG family
VYA_06340	COG5595	Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310)
VYA_06350	COG1464	Belongs to the NlpA lipoprotein family
VYA_06360	COG2011	ABC-type metal ion transport system permease component
VYA_06370	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
VYA_06380	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
VYA_06400	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
VYA_06400	COG1263	PTS System
VYA_06410	COG0366	Alpha amylase catalytic
VYA_06420	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
VYA_06430	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
VYA_06470	COG1686	Belongs to the peptidase S11 family
VYA_06480	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
VYA_06490	COG0772	Belongs to the SEDS family
VYA_06500	COG0768	penicillin binding
VYA_06510	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
VYA_06520	COG0799	negative regulation of ribosome biogenesis
VYA_06530	COG1466	dna polymerase III delta subunit
VYA_06540	COG2980	Together with LptD, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane. Required for the proper assembly of LptD. Binds LPS and may serve as the LPS recognition site at the outer membrane
VYA_06550	COG0495	leucyl-tRNA aminoacylation
VYA_06560	COG2888	peptidyl-tyrosine sulfation
VYA_06570	COG0815	Transfers the fatty acyl group on membrane lipoproteins
VYA_06580	COG4535	Mg2 and Co2 transporter CorC
VYA_06600	COG1702	phosphate starvation-inducible protein PhoH
VYA_06610	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
VYA_06620	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
VYA_06650	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)
VYA_06660	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
VYA_06690	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
VYA_06700	COG2890	protein-(glutamine-N5) methyltransferase activity
VYA_06710	COG3094	Invasion gene expression up-regulator, SirB
VYA_06720	COG2912	Transglutaminase-like superfamily
VYA_06740	COG0737	Belongs to the 5'-nucleotidase family
VYA_06750	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
VYA_06760	COG1187	pseudouridine synthase activity
VYA_06770	COG2840	Smr protein MutS2
VYA_06840	COG2608	mercury ion transmembrane transporter activity
VYA_06840	COG2217	Heavy metal translocating P-type atpase
VYA_06850	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)
VYA_06940	COG0835	chemotaxis
VYA_06940	COG0784	Response regulator, receiver
VYA_06950	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
VYA_06960	COG1815	bacterial-type flagellum-dependent cell motility
VYA_06970	COG1558	bacterial-type flagellum-dependent cell motility
VYA_07000	COG4787	bacterial-type flagellum-dependent cell motility
VYA_07020	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
VYA_07030	COG1706	bacterial-type flagellum-dependent cell motility
VYA_07040	COG3951	Flagellar rod assembly protein muramidase FlgJ
VYA_07040	COG1705	Flagellar rod assembly protein muramidase FlgJ
VYA_07070	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
VYA_07080	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
VYA_07090	COG2190	(PTS) system
VYA_07100	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)
VYA_07110	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
VYA_07120	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
VYA_07130	COG2981	High affinity, high specificity proton-dependent sulfate transporter, which mediates sulfate uptake. Provides the sulfur source for the cysteine synthesis pathway
VYA_07200	COG1585	Membrane protein implicated in regulation of membrane protease activity
VYA_07210	COG0330	HflC and HflK could
VYA_07220	COG3118	belongs to the thioredoxin family
VYA_07230	COG0300	oxidoreductase activity
VYA_07240	COG1090	epimerase
VYA_07260	COG0622	Phosphoesterase
VYA_07300	COG3710	Transcriptional regulator
VYA_07310	COG0326	Molecular chaperone. Has ATPase activity
VYA_07330	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
VYA_07340	COG3104	oligopeptide transport
VYA_07360	COG0367	asparagine synthase
VYA_07370	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
VYA_07370	COG4651	solute:proton antiporter activity
VYA_07380	COG1846	Transcriptional regulator
VYA_07380	COG1940	carbohydrate kinase activity
VYA_07390	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
VYA_07400	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
VYA_07400	COG2190	(PTS) system
VYA_07400	COG1263	PTS System
VYA_07420	COG0735	belongs to the Fur family
VYA_07440	COG0716	FMN binding
VYA_07460	COG0596	Alpha beta hydrolase
VYA_07470	COG3057	Negative regulator of replication initiation, which contributes to regulation of DNA replication and ensures that replication initiation occurs exactly once per chromosome per cell cycle. Binds to pairs of hemimethylated GATC sequences in the oriC region, thus preventing assembly of replication proteins and re- initiation at newly replicated origins. Repression is relieved when the region becomes fully methylated
VYA_07480	COG0033	Phosphoglucomutase
VYA_07500	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
VYA_07530	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
VYA_07540	COG1053	succinate dehydrogenase
VYA_07550	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
VYA_07560	COG0567	Dehydrogenase, E1 component
VYA_07570	COG0508	dehydrogenase complex catalyzes the overall conversion of
VYA_07600	COG1108	ABC-type Mn2 Zn2 transport systems permease components
VYA_07610	COG1121	(ABC) transporter
VYA_07620	COG4531	ABC-type Zn2 transport system, periplasmic component surface adhesin
VYA_07630	COG4977	sequence-specific DNA binding
VYA_07640	COG1918	ferrous iron import across plasma membrane
VYA_07690	COG3102	Protein conserved in bacteria
VYA_07700	COG0788	formyltetrahydrofolate deformylase activity
VYA_07710	COG1199	ATP-dependent helicase activity
VYA_07720	COG1214	PFAM Peptidase M22, glycoprotease
VYA_07750	COG0596	Alpha beta hydrolase
VYA_07760	COG0318	PFAM AMP-dependent synthetase and ligase
VYA_07770	COG0349	Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides
VYA_07780	COG0851	Prevents the cell division inhibition by proteins MinC and MinD at internal division sites while permitting inhibition at polar sites. This ensures cell division at the proper site by restricting the formation of a division septum at the midpoint of the long axis of the cell
VYA_07790	COG2894	cell division
VYA_07820	COG2951	lytic endotransglycosylase activity
VYA_07840	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
VYA_07860	COG1253	flavin adenine dinucleotide binding
VYA_07870	COG0513	Belongs to the DEAD box helicase family
VYA_07880	COG0569	domain protein
VYA_07890	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
VYA_07950	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
VYA_07960	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
VYA_07970	COG0776	regulation of translation
VYA_07980	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
VYA_07990	COG1555	photosystem II stabilization
VYA_08030	COG1896	Catalyzes the strictly specific dephosphorylation of 2'- deoxyribonucleoside 5'-monophosphates
VYA_08040	COG0436	Aminotransferase
VYA_08050	COG1169	isochorismate synthase
VYA_08070	COG0596	Alpha beta hydrolase
VYA_08080	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
VYA_08120	COG2855	membrane
VYA_08130	COG0477	Major facilitator Superfamily
VYA_08170	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
VYA_08180	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
VYA_08220	COG2226	methyltransferase
VYA_08240	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
VYA_08250	COG0229	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
VYA_08270	COG3139	Protein of unknown function (DUF1315)
VYA_08280	COG0252	asparaginase activity
VYA_08290	COG0616	signal peptide processing
VYA_08300	COG1902	pentaerythritol trinitrate reductase activity
VYA_08300	COG0446	pyridine nucleotide-disulphide oxidoreductase
VYA_08310	COG0778	Nitroreductase
VYA_08320	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
VYA_08350	COG2721	sulfolactate sulfo-lyase activity
VYA_08370	COG4948	Mandelate Racemase Muconate Lactonizing
VYA_08380	COG0123	including yeast histone deacetylase and acetoin utilization protein
VYA_08390	COG3083	sulfuric ester hydrolase activity
VYA_08440	COG1757	Na H antiporter
VYA_08450	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
VYA_08460	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
VYA_08470	COG2095	MarC family integral membrane protein
VYA_08480	COG1012	belongs to the aldehyde dehydrogenase family
VYA_08480	COG1454	alcohol dehydrogenase
VYA_08520	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
VYA_08530	COG2206	PFAM metal-dependent phosphohydrolase, HD sub domain
VYA_08550	COG1132	(ABC) transporter
VYA_08590	COG2056	Na+-H+ antiporter family
VYA_08610	COG2885	chlorophyll binding
VYA_08630	COG0346	lactoylglutathione lyase activity
VYA_08640	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
VYA_08650	COG4660	Part of a membrane complex involved in electron transport
VYA_08660	COG4659	FMN binding
VYA_08670	COG4658	electron transport chain
VYA_08680	COG4656	Part of a membrane complex involved in electron transport
VYA_08700	COG4657	Part of a membrane complex involved in electron transport
VYA_08710	COG1882	Formate acetyltransferase
VYA_08720	COG0556	nucleotide-excision repair
VYA_08740	COG2198	Histidine kinase
VYA_08750	COG0391	Required for morphogenesis under gluconeogenic growth conditions
VYA_08760	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
VYA_08770	COG0521	Mo-molybdopterin cofactor biosynthetic process
VYA_08790	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
VYA_08800	COG0314	molybdopterin synthase activity
VYA_08820	COG0601	transmembrane transport
VYA_08830	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
VYA_08840	COG0444	Belongs to the ABC transporter superfamily
VYA_08880	COG0435	Glutathione S-transferase
VYA_08890	COG3174	membrane
VYA_08900	COG0857	belongs to the CobB CobQ family
VYA_08900	COG0280	phosphate acetyltransferase
VYA_08940	COG4120	Belongs to the binding-protein-dependent transport system permease family
VYA_08950	COG1122	ATPase activity
VYA_08960	COG0366	Alpha amylase catalytic
VYA_08980	COG3706	GGDEF domain
VYA_08990	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
VYA_09000	COG3012	SEC-C Motif Domain Protein
VYA_09000	COG3318	Belongs to the UPF0149 family
VYA_09010	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
VYA_09030	COG2186	Transcriptional regulator
VYA_09070	COG0572	uridine kinase
VYA_09080	COG2982	Protein involved in outer membrane biogenesis
VYA_09090	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
VYA_09100	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
VYA_09110	COG0659	secondary active sulfate transmembrane transporter activity
VYA_09120	COG1530	ribonuclease E activity
VYA_09130	COG0564	pseudouridine synthase activity
VYA_09140	COG0424	maF-like protein
VYA_09150	COG1399	metal-binding, possibly nucleic acid-binding protein
VYA_09160	COG0333	Belongs to the bacterial ribosomal protein bL32 family
VYA_09180	COG0332	Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids
VYA_09240	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
VYA_09270	COG0084	hydrolase, TatD family'
VYA_09280	COG0084	hydrolase, TatD family'
VYA_09290	COG1263	PTS System
VYA_09290	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
VYA_09320	COG4667	esterase of the alpha-beta hydrolase superfamily
VYA_09330	COG0469	pyruvate kinase activity
VYA_09340	COG1940	carbohydrate kinase activity
VYA_09350	COG0835	chemotaxis
VYA_09350	COG0784	Response regulator, receiver
VYA_09390	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_09400	COG0616	signal peptide processing
VYA_09410	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
VYA_09420	COG0539	negative regulation of cytoplasmic translation
VYA_09440	COG3771	Involved in the assembly of lipopolysaccharide (LPS)
VYA_09450	COG2956	Modulates cellular lipopolysaccharide (LPS) levels by regulating LpxC, which is involved in lipid A biosynthesis. May act by modulating the proteolytic activity of FtsH towards LpxC. May also coordinate assembly of proteins involved in LPS synthesis at the plasma membrane
VYA_09470	COG4166	transmembrane transport
VYA_09510	COG3009	Protein conserved in bacteria
VYA_09520	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
VYA_09520	COG3008	intermembrane lipid transfer
VYA_09530	COG2995	paraquat-inducible protein a
VYA_09540	COG1609	Transcriptional regulator
VYA_09550	COG3250	beta-galactosidase activity
VYA_09570	COG4580	involved in the transport of maltose and maltodextrins
VYA_09590	COG2211	Major facilitator Superfamily
VYA_09620	COG4232	protein-disulfide reductase activity
VYA_09630	COG3118	belongs to the thioredoxin family
VYA_09770	COG5002	protein histidine kinase activity
VYA_09770	COG3850	Histidine kinase
VYA_09780	COG0745	RESPONSE REGULATOR receiver
VYA_09790	COG0463	Glycosyl transferase, family 2
VYA_09800	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
VYA_09820	COG0840	transmembrane signaling receptor activity
VYA_09830	COG2964	Protein conserved in bacteria
VYA_09860	COG0446	pyridine nucleotide-disulphide oxidoreductase
VYA_09870	COG1032	radical SAM domain protein
VYA_09880	COG2203	Gaf domain
VYA_09880	COG4251	negative regulation of phosphorylation
VYA_09880	COG3706	GGDEF domain
VYA_09880	COG5001	Diguanylate cyclase
VYA_09910	COG0583	DNA-binding transcription factor activity
VYA_09920	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
VYA_09940	COG2350	Protein conserved in bacteria
VYA_09950	COG1607	acyl-coa hydrolase
VYA_09970	COG3633	Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
VYA_09980	COG1301	dicarboxylic acid transport
VYA_09990	COG0159	tryptophan synthase activity
VYA_10010	COG0134	indole-3-glycerol-phosphate synthase activity
VYA_10010	COG0135	phosphoribosylanthranilate isomerase activity
VYA_10030	COG0512	Glutamine amidotransferase of anthranilate synthase
VYA_10040	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
VYA_10050	COG0613	PHP domain protein
VYA_10060	COG0009	L-threonylcarbamoyladenylate synthase
VYA_10070	COG1187	pseudouridine synthase activity
VYA_10110	COG0417	DNA replication proofreading
VYA_10130	COG2197	response regulator
VYA_10140	COG0322	excinuclease ABC activity
VYA_10180	COG0019	diaminopimelate decarboxylase activity
VYA_10190	COG0287	Prephenate dehydrogenase
VYA_10230	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
VYA_10240	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
VYA_10250	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
VYA_10300	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
VYA_10310	COG2989	Protein conserved in bacteria
VYA_10320	COG3108	Peptidase M15
VYA_10330	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
VYA_10360	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
VYA_10420	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
VYA_10470	COG1448	Aminotransferase
VYA_10500	COG0017	Asparaginyl-tRNA synthetase
VYA_10510	COG0720	synthase
VYA_10530	COG1760	l-serine dehydratase
VYA_10540	COG0814	amino acid
VYA_10550	COG0494	nUDIX hydrolase
VYA_10560	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
VYA_10590	COG3106	COG3106 Predicted ATPase
VYA_10620	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
VYA_11130	COG0494	nUDIX hydrolase
VYA_11190	COG2801	Transposase and inactivated derivatives
VYA_11200	COG2963	transposase activity
VYA_11390	COG4737	Cytotoxic translational repressor of toxin-antitoxin stability system
VYA_11400	COG2944	sequence-specific DNA binding
VYA_11420	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
VYA_11510	COG0494	nUDIX hydrolase
VYA_11540	COG2801	Transposase and inactivated derivatives
VYA_11550	COG2963	transposase activity
VYA_11740	COG0456	acetyltransferase
VYA_11760	COG0471	metal ion transport
VYA_11770	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
VYA_11770	COG4191	Histidine kinase
VYA_11790	COG5001	Diguanylate cyclase
VYA_11810	COG1280	lysine exporter protein (LysE YggA)
VYA_11820	COG1328	CTP reductase activity
VYA_11830	COG1180	Activation of pyruvate formate-lyase under anaerobic conditions by generation of an organic free radical, using S- adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine
VYA_11850	COG0861	Integral membrane protein TerC family
VYA_11880	COG0814	amino acid
VYA_11890	COG3437	response regulator, receiver
VYA_11920	COG1132	(ABC) transporter
VYA_11930	COG1132	(ABC) transporter
VYA_11960	COG0443	Heat shock 70 kDa protein
VYA_11970	COG0443	Heat shock 70 kDa protein
VYA_11990	COG3706	GGDEF domain
VYA_12010	COG0776	regulation of translation
VYA_12050	COG0295	cytidine deaminase activity
VYA_12060	COG1346	cytolysis
VYA_12080	COG2925	Exonuclease
VYA_12090	COG0702	epimerase
VYA_12110	COG0368	Joins adenosylcobinamide-GDP and alpha-ribazole to generate adenosylcobalamin (Ado-cobalamin). Also synthesizes adenosylcobalamin 5'-phosphate from adenosylcobinamide-GDP and alpha-ribazole 5'-phosphate
VYA_12160	COG4139	cobalamin transport
VYA_12180	COG3063	Type IV pilus biogenesis stability protein PilW
VYA_12220	COG0531	amino acid
VYA_12230	COG1280	lysine exporter protein (LysE YggA)
VYA_12240	COG1560	Kdo2-lipid A biosynthetic process
VYA_12250	COG2317	Broad specificity carboxypetidase that releases amino acids sequentially from the C-terminus, including neutral, aromatic, polar and basic residues
VYA_12260	COG1280	lysine exporter protein (LysE YggA)
VYA_12270	COG1115	amino acid carrier protein
VYA_12340	COG0583	DNA-binding transcription factor activity
VYA_12360	COG1451	nucleotide metabolic process
VYA_12380	COG0784	Response regulator, receiver
VYA_12380	COG2205	protein histidine kinase activity
VYA_12430	COG3938	Belongs to the proline racemase family
VYA_12460	COG2423	ornithine cyclodeaminase activity
VYA_12470	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
VYA_12480	COG3842	ATPase activity
VYA_12490	COG1176	ABC-type spermidine putrescine transport system, permease component I
VYA_12500	COG1177	transmembrane transport
VYA_12610	COG0583	DNA-binding transcription factor activity
VYA_12710	COG2195	Cleaves the N-terminal amino acid of tripeptides
VYA_12830	COG3508	Involved in the catabolism of homogentisate (2,5- dihydroxyphenylacetate or 2,5-OH-PhAc), a central intermediate in the degradation of phenylalanine and tyrosine. Catalyzes the oxidative ring cleavage of the aromatic ring of homogentisate to yield maleylacetoacetate
VYA_12850	COG0625	glutathione transferase activity
VYA_12930	COG2197	response regulator
VYA_12950	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
VYA_12970	COG0438	transferase activity, transferring glycosyl groups
VYA_13000	COG0110	maltose O-acetyltransferase activity
VYA_13120	COG0784	Response regulator, receiver
VYA_13120	COG2205	protein histidine kinase activity
VYA_13150	COG3049	Linear amide C-N hydrolases, choloylglycine hydrolase family
VYA_13160	COG0668	transmembrane transport
VYA_13170	COG3247	response to pH
VYA_13180	COG0697	spore germination
VYA_13210	COG0110	maltose O-acetyltransferase activity
VYA_13220	COG3064	Membrane
VYA_13260	COG0534	Mate efflux family protein
VYA_13270	COG0307	riboflavin synthase, alpha
VYA_13290	COG3001	Fructosamine kinase
VYA_13300	COG2201	protein-glutamate methylesterase activity
VYA_13310	COG3706	GGDEF domain
VYA_13330	COG0791	NLP P60 protein
VYA_13360	COG3148	PFAM DTW domain containing protein
VYA_13370	COG1940	carbohydrate kinase activity
VYA_13390	COG0303	'Molybdopterin
VYA_13400	COG0746	molybdenum cofactor guanylyltransferase activity
VYA_13410	COG3842	ATPase activity
VYA_13450	COG4191	Histidine kinase
VYA_13490	COG0488	(ABC) transporter
VYA_13500	COG1526	Required for formate dehydrogenase (FDH) activity. Acts as a sulfur carrier protein that transfers sulfur from IscS to the molybdenum cofactor prior to its insertion into FDH
VYA_13540	COG3381	protein complex oligomerization
VYA_13560	COG3383	formate dehydrogenase (NAD+) activity
VYA_13560	COG0243	molybdopterin cofactor binding
VYA_13570	COG0437	4 iron, 4 sulfur cluster binding
VYA_13600	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
VYA_13610	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
VYA_13630	COG1177	transmembrane transport
VYA_13650	COG3842	ATPase activity
VYA_13700	COG0589	response to stress
VYA_13710	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
VYA_13740	COG2217	Heavy metal translocating P-type atpase
VYA_13760	COG2010	Cytochrome c
VYA_13790	COG3278	Belongs to the heme-copper respiratory oxidase family
VYA_13820	COG0784	Response regulator, receiver
VYA_13820	COG2205	protein histidine kinase activity
VYA_13860	COG3120	sequence-specific DNA binding
VYA_13870	COG1067	ATP-dependent peptidase activity
VYA_13880	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
VYA_13910	COG0488	(ABC) transporter
VYA_13950	COG0167	dihydroorotate dehydrogenase activity
VYA_13960	COG2902	Dehydrogenase
VYA_13970	COG0308	aminopeptidase N
VYA_14000	COG3109	RNA chaperone with significant RNA binding, RNA strand exchange and RNA duplexing activities
VYA_14010	COG1956	GAF domain-containing protein
VYA_14020	COG1132	(ABC) transporter
VYA_14030	COG2995	paraquat-inducible protein a
VYA_14040	COG3008	intermembrane lipid transfer
VYA_14090	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
VYA_14120	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
VYA_14130	COG4597	amino acid ABC transporter
VYA_14140	COG0765	amino acid transport
VYA_14150	COG1126	abc transporter atp-binding protein
VYA_14160	COG0670	Belongs to the BI1 family
VYA_14170	COG2920	part of a sulfur-relay system
VYA_14180	COG1254	Belongs to the acylphosphatase family
VYA_14270	COG0602	queuosine metabolic process
VYA_14280	COG0561	phosphatase activity
VYA_14320	COG2828	Protein conserved in bacteria
VYA_14340	COG0372	Belongs to the citrate synthase family
VYA_14350	COG2513	Catalyzes the thermodynamically favored C-C bond cleavage of (2R,3S)-2-methylisocitrate to yield pyruvate and succinate
VYA_14360	COG2186	Transcriptional regulator
VYA_14370	COG2206	PFAM metal-dependent phosphohydrolase, HD sub domain
VYA_14380	COG2206	PFAM metal-dependent phosphohydrolase, HD sub domain
VYA_14400	COG0730	response to heat
VYA_14410	COG2358	TRAP transporter, solute receptor (TAXI family
VYA_14420	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
VYA_14440	COG1012	belongs to the aldehyde dehydrogenase family
VYA_14450	COG3284	Transcriptional regulator
VYA_14520	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
VYA_14530	COG0363	glucosamine-6-phosphate deaminase activity
VYA_14540	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
VYA_14570	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
VYA_14600	COG0702	epimerase
VYA_14610	COG0583	DNA-binding transcription factor activity
VYA_14630	COG0527	aspartate kinase activity
VYA_14640	COG0662	Cupin 2, conserved barrel domain protein
VYA_14650	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
VYA_14660	COG0456	acetyltransferase
VYA_14670	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
VYA_14710	COG4176	ABC-type proline glycine betaine transport system permease component
VYA_14720	COG2113	Glycine betaine
VYA_14730	COG0534	Mate efflux family protein
VYA_14750	COG1643	Atp-dependent helicase
VYA_14760	COG1182	Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity
VYA_14820	COG0072	phenylalanine-tRNA ligase activity
VYA_14820	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
VYA_14850	COG0393	Putative heavy-metal-binding
VYA_14870	COG0291	Belongs to the bacterial ribosomal protein bL35 family
VYA_14890	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)
VYA_14930	COG3064	Membrane
VYA_14940	COG3287	FIST C domain
VYA_14940	COG2200	EAL domain
VYA_14940	COG2199	diguanylate cyclase activity
VYA_15090	COG3706	GGDEF domain
VYA_15100	COG1960	acyl-CoA dehydrogenase activity
VYA_15150	COG0010	Belongs to the arginase family
VYA_15160	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
VYA_15170	COG2986	histidine ammonia-lyase
VYA_15200	COG0277	FAD linked oxidase domain protein
VYA_15200	COG0247	lactate metabolic process
VYA_15270	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
VYA_15290	COG1643	Atp-dependent helicase
VYA_15310	COG2949	membrane
VYA_15320	COG0471	metal ion transport
VYA_15330	COG3706	GGDEF domain
VYA_15370	COG0492	ferredoxin-NADP+ reductase activity
VYA_15380	COG4988	ABC transporter
VYA_15390	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
VYA_15420	COG3706	GGDEF domain
VYA_15440	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
VYA_15460	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
VYA_15460	COG4191	Histidine kinase
VYA_15490	COG3070	regulator of competence-specific genes
VYA_15510	COG2431	L-lysine efflux transmembrane transporter activity
VYA_15530	COG0076	glutamate decarboxylase activity
VYA_15540	COG1737	Transcriptional regulator
VYA_15560	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
VYA_15590	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
VYA_15650	COG4181	ATPase activity
VYA_15660	COG0534	Mate efflux family protein
VYA_15670	COG0702	epimerase
VYA_15680	COG1609	Transcriptional regulator
VYA_15700	COG4146	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
VYA_15720	COG2814	Major facilitator Superfamily
VYA_15730	COG1187	pseudouridine synthase activity
VYA_15740	COG1061	Type III restriction enzyme res subunit
VYA_15790	COG0737	Belongs to the 5'-nucleotidase family
VYA_15850	COG0493	'glutamate synthase
VYA_15870	COG0398	Pfam SNARE associated Golgi protein
VYA_15880	COG4134	Bacterial extracellular solute-binding protein
VYA_15890	COG4135	transport system, permease component
VYA_15900	COG4136	ATPase activity
VYA_15910	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
VYA_15930	COG3604	Transcriptional regulator
VYA_15940	COG1151	hydroxylamine reductase activity
VYA_15970	COG0564	pseudouridine synthase activity
VYA_15990	COG0733	neurotransmitter:sodium symporter activity
VYA_16010	COG0626	cystathionine gamma-synthase activity
VYA_16020	COG2818	Glycosylase
VYA_16040	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
VYA_16090	COG1842	Phage shock protein A
VYA_16100	COG1221	Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain
VYA_16120	COG4168	peptide transport system, permease
VYA_16130	COG4171	peptide transport system, permease
VYA_16150	COG4172	Belongs to the ABC transporter superfamily
VYA_16170	COG1227	inorganic diphosphatase activity
VYA_16200	COG0243	molybdopterin cofactor binding
VYA_16210	COG3005	denitrification pathway
VYA_16220	COG4459	periplasmic nitrate reductase
VYA_16230	COG0390	transport system, permease component
VYA_16250	COG2116	formate transmembrane transporter activity
VYA_16300	COG1434	Gram-negative-bacterium-type cell wall biogenesis
VYA_16320	COG1435	thymidine kinase activity
VYA_16330	COG0215	cysteine-tRNA ligase activity
VYA_16340	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
VYA_16350	COG2908	Hydrolyzes the pyrophosphate bond of UDP-2,3- diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate (lipid X) and UMP by catalyzing the attack of water at the alpha-P atom. Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
VYA_16360	COG3434	signal transduction protein containing EAL and modified HD-GYP domains
VYA_16370	COG3012	SEC-C Motif Domain Protein
VYA_16380	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
VYA_16380	COG0140	phosphoribosyl-ATP diphosphatase activity
VYA_16400	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
VYA_16410	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
VYA_16420	COG0131	Imidazoleglycerol-phosphate dehydratase
VYA_16420	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
VYA_16430	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
VYA_16440	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
VYA_16470	COG1757	Na H antiporter
VYA_16480	COG2916	Histone family protein nucleoid-structuring protein H-NS
VYA_16490	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
VYA_16510	COG0482	sulfurtransferase activity
VYA_16530	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
VYA_16550	COG2268	Band 7 protein
VYA_16580	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
VYA_16610	COG0300	oxidoreductase activity
VYA_16670	COG0156	8-amino-7-oxononanoate synthase activity
VYA_16700	COG1734	Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters
VYA_16720	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
VYA_16730	COG2834	Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane)
VYA_16740	COG1674	ftsk spoiiie
VYA_16760	COG0686	Belongs to the AlaDH PNT family
VYA_16780	COG0583	DNA-binding transcription factor activity
VYA_16810	COG2084	Dehydrogenase
VYA_16850	COG0800	Aldolase
VYA_16860	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
VYA_16870	COG1917	Cupin 2, conserved barrel domain protein
VYA_16900	COG2731	YhcH YjgK YiaL family protein
VYA_16910	COG0534	Mate efflux family protein
VYA_16920	COG2186	Transcriptional regulator
VYA_16930	COG2186	Transcriptional regulator
VYA_16940	COG0517	IMP dehydrogenase activity
VYA_16950	COG2176	DNA-directed DNA polymerase activity
VYA_17000	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
VYA_17050	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
VYA_17060	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
VYA_17080	COG2824	Alkylphosphonate utilization operon protein PhnA
VYA_17150	COG0514	ATP-dependent DNA helicase (RecQ)
VYA_17190	COG0514	ATP-dependent DNA helicase (RecQ)
VYA_17200	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
VYA_17210	COG0302	gtp cyclohydrolase
VYA_17220	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
VYA_17230	COG0602	queuosine metabolic process
VYA_17380	COG1397	ADP-ribosylglycohydrolase
VYA_17400	COG4096	Type I site-specific restriction-modification system, R (Restriction) subunit and related
VYA_17530	COG0582	viral genome integration into host DNA
VYA_17550	COG5002	protein histidine kinase activity
VYA_17550	COG0784	Response regulator, receiver
VYA_17590	COG1729	Mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division
VYA_17600	COG2885	chlorophyll binding
VYA_17610	COG0823	Involved in the tonB-independent uptake of proteins
VYA_17640	COG0811	peptide transport
VYA_17650	COG0824	Thioesterase
VYA_17670	COG1294	oxidase, subunit
VYA_17680	COG1271	oxidase subunit
VYA_17700	COG0632	four-way junction helicase activity
VYA_17710	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
VYA_17720	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)
VYA_17730	COG1801	Protein of unknown function DUF72
VYA_17740	COG4106	trans-aconitate 2-methyltransferase activity
VYA_17750	COG0500	methyltransferase
VYA_17760	COG4067	protein conserved in archaea
VYA_17760	COG0189	ligase activity
VYA_17800	COG1609	Transcriptional regulator
VYA_17880	COG3096	Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division
VYA_17890	COG3095	Involved in chromosome condensation, segregation and cell cycle progression. May participate in facilitating chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division. Probably acts via its interaction with MukB and MukF
VYA_17900	COG3006	Involved in chromosome condensation, segregation and cell cycle progression. May participate in facilitating chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division. Not required for mini-F plasmid partitioning. Probably acts via its interaction with MukB and MukE. Overexpression results in anucleate cells. It has a calcium binding activity
VYA_17910	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
VYA_17920	COG1434	Gram-negative-bacterium-type cell wall biogenesis
VYA_17930	COG0745	RESPONSE REGULATOR receiver
VYA_17940	COG3381	protein complex oligomerization
VYA_17960	COG3070	regulator of competence-specific genes
VYA_18000	COG0297	glycogen (starch) synthase activity
VYA_18010	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
VYA_18030	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
VYA_18080	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
VYA_18090	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
VYA_18100	COG0542	response to heat
VYA_18120	COG1278	Cold shock
VYA_18140	COG1187	pseudouridine synthase activity
VYA_18150	COG3110	Uncharacterized protein conserved in bacteria (DUF2057)
VYA_18170	COG1199	ATP-dependent helicase activity
VYA_18180	COG0730	response to heat
VYA_18190	COG3923	Primosomal replication protein n
VYA_18210	COG0708	Exodeoxyribonuclease III
VYA_18280	COG1882	Formate acetyltransferase
VYA_18300	COG1180	Activation of pyruvate formate-lyase under anaerobic conditions by generation of an organic free radical, using S- adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine
VYA_18330	COG2766	serine protein kinase
VYA_18340	COG2718	Belongs to the UPF0229 family
VYA_18350	COG2718	Belongs to the UPF0229 family
VYA_18360	COG2719	SpoVR family
VYA_18400	COG1132	(ABC) transporter
VYA_18430	COG4591	ABC-type transport system involved in lipoprotein release permease component
VYA_18440	COG1136	(ABC) transporter
VYA_18450	COG4591	ABC-type transport system involved in lipoprotein release permease component
VYA_18470	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
VYA_18500	COG1252	NADH dehydrogenase
VYA_18520	COG0510	thiamine kinase activity
VYA_18560	COG0537	adenosine 5'-monophosphoramidase activity
VYA_18630	COG0516	GMP reductase activity
VYA_18630	COG0517	IMP dehydrogenase activity
VYA_18640	COG2509	5-formyltetrahydrofolate cyclo-ligase activity
VYA_18650	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
VYA_18660	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
VYA_18670	COG3706	GGDEF domain
VYA_18700	COG3126	Type III secretion system lipoprotein chaperone (YscW)
VYA_18710	COG1946	Acyl-CoA thioesterase
VYA_18720	COG1522	sequence-specific DNA binding
VYA_18760	COG0668	transmembrane transport
VYA_18770	COG0076	glutamate decarboxylase activity
VYA_18780	COG2985	domain, Protein
VYA_18790	COG2261	transglycosylase associated protein
VYA_18800	COG2983	Belongs to the UPF0260 family
VYA_18820	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
VYA_18830	COG0353	May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO
VYA_18840	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
VYA_18850	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
VYA_18870	COG2832	Protein of unknown function (DUF454)
VYA_18880	COG0745	RESPONSE REGULATOR receiver
VYA_18890	COG0583	DNA-binding transcription factor activity
VYA_18900	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
VYA_18910	COG1286	toxin biosynthetic process
VYA_18920	COG3147	Non-essential cell division protein that could be required for efficient cell constriction
VYA_18930	COG0285	dihydrofolate synthase activity
VYA_18970	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
VYA_18980	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
VYA_18990	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
VYA_19030	COG3101	peptidyl-lysine hydroxylation
VYA_19040	COG2860	membrane
VYA_19050	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
VYA_19060	COG2890	protein-(glutamine-N5) methyltransferase activity
VYA_19070	COG2840	Smr protein MutS2
VYA_19080	COG2062	phosphohistidine phosphatase, SixA
VYA_19110	COG1250	3-hydroxyacyl-CoA dehydrogenase
VYA_19110	COG1024	Enoyl-CoA hydratase
VYA_19120	COG0183	Belongs to the thiolase family
VYA_19150	COG2067	long-chain fatty acid transport protein
VYA_19170	COG2853	Lipoprotein
VYA_19180	COG4235	cytochrome complex assembly
VYA_19180	COG3088	subunit of a heme lyase
VYA_19200	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
VYA_19210	COG1138	Cytochrome C-type biogenesis protein
VYA_19240	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
VYA_19250	COG2386	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
VYA_19260	COG4133	protoheme IX ABC transporter activity
VYA_19280	COG0835	chemotaxis
VYA_19300	COG1192	Involved in chromosome partitioning
VYA_19310	COG2201	protein-glutamate methylesterase activity
VYA_19320	COG0643	Histidine kinase
VYA_19320	COG0784	Response regulator, receiver
VYA_19320	COG2198	Histidine kinase
VYA_19330	COG3143	Plays an important role in bacterial chemotaxis signal transduction pathway by accelerating the dephosphorylation of phosphorylated CheY (CheY-P)
VYA_19400	COG1684	flagellar biosynthetic protein fliR
VYA_19410	COG1987	bacterial-type flagellum assembly
VYA_19510	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
VYA_19530	COG1677	Flagellar hook-basal body complex protein FliE
VYA_19570	COG1516	flagellar protein fliS
VYA_19590	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
VYA_19600	COG1334	flagellar protein FlaG
VYA_19610	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
VYA_19620	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
VYA_19630	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
VYA_19640	COG2837	iron assimilation
VYA_19680	COG1393	Belongs to the ArsC family
VYA_19720	COG3317	Gram-negative-bacterium-type cell outer membrane assembly
VYA_19730	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
VYA_19740	COG2716	regulation of RNA biosynthetic process
VYA_19750	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
VYA_19800	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
VYA_19880	COG3344	reverse transcriptase
VYA_19910	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
VYA_19940	COG4783	chaperone-mediated protein folding
VYA_19950	COG1393	Belongs to the ArsC family
VYA_19990	COG2233	PERMEase
VYA_20000	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
VYA_20010	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
VYA_20020	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
VYA_20040	COG0121	glutamine amidotransferase
VYA_20050	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
VYA_20060	COG1960	acyl-CoA dehydrogenase activity
VYA_20090	COG0847	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease
VYA_20110	COG2226	methyltransferase
VYA_20120	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
VYA_20130	COG0741	lytic transglycosylase activity
VYA_20130	COG1388	LysM domain
VYA_20160	COG0347	Belongs to the P(II) protein family
VYA_20200	COG0587	DNA-directed DNA polymerase activity
VYA_20250	COG1044	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
VYA_20260	COG2825	PFAM Outer membrane chaperone Skp (OmpH)
VYA_20280	COG0750	zinc metalloprotease
VYA_20300	COG0575	Belongs to the CDS family
VYA_20310	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
VYA_20340	COG0264	Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome
VYA_20360	COG0024	Methionine aminopeptidase
VYA_20390	COG0564	pseudouridine synthase activity
VYA_20400	COG3098	single-species biofilm formation
VYA_20440	COG1671	Belongs to the UPF0178 family
VYA_20450	COG2978	secondary active p-aminobenzoyl-glutamate transmembrane transporter activity
VYA_20460	COG1720	tRNA m6t6A37 methyltransferase activity
VYA_20510	COG0733	neurotransmitter:sodium symporter activity
VYA_20530	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
VYA_20540	COG0514	ATP-dependent DNA helicase (RecQ)
VYA_20550	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
VYA_20560	COG0840	transmembrane signaling receptor activity
VYA_20590	COG1477	protein flavinylation
VYA_20610	COG2209	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
VYA_20660	COG0271	Belongs to the BolA IbaG family
VYA_20670	COG2813	Specifically methylates the guanine in position
VYA_20720	COG1595	DNA-templated transcription, initiation
VYA_20760	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
VYA_20770	COG0693	protein deglycase activity
VYA_20780	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
VYA_20790	COG2166	iron-sulfur cluster assembly
VYA_20800	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
VYA_20810	COG2821	murein-degrading enzyme. may play a role in recycling of muropeptides during cell elongation and or cell division
VYA_20830	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
VYA_20830	COG1246	Belongs to the acetyltransferase family. ArgA subfamily
VYA_20850	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
VYA_20860	COG1074	ATP-dependent DNA helicase activity
VYA_20870	COG1330	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit recognizes the wild- type Chi sequence, and when added to isolated RecB increases its ATP-dependent helicase processivity
VYA_20900	COG3141	response to X-ray
VYA_20930	COG2171	N-acyltransferase activity
VYA_20940	COG1929	Belongs to the glycerate kinase type-1 family
VYA_20950	COG2084	Dehydrogenase
VYA_20960	COG3622	Belongs to the hyi family
VYA_20970	COG3960	tartronate-semialdehyde synthase activity
VYA_21000	COG1953	Uracil, thiamine, allantoin
VYA_21020	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
VYA_21030	COG2055	Belongs to the LDH2 MDH2 oxidoreductase family
VYA_21050	COG0074	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit
VYA_21060	COG0074	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit
VYA_21070	COG0583	DNA-binding transcription factor activity
VYA_21080	COG0549	Belongs to the carbamate kinase family
VYA_21090	COG3257	ureidoglycine aminohydrolase activity
VYA_21100	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
VYA_21120	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
VYA_21130	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
VYA_21170	COG1609	Transcriptional regulator
VYA_21180	COG2017	converts alpha-aldose to the beta-anomer
VYA_21200	COG1085	galactose-1-phosphate uridylyltransferase
VYA_21210	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
VYA_21220	COG1609	Transcriptional regulator
VYA_21230	COG0583	DNA-binding transcription factor activity
VYA_21250	COG1022	Amp-dependent synthetase and ligase
VYA_21260	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
VYA_21270	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
VYA_21290	COG0560	Phosphoserine phosphatase
VYA_21310	COG0813	purine-nucleoside phosphorylase activity
VYA_21330	COG0213	The enzymes which catalyze the reversible phosphorolysis of pyrimidine nucleosides are involved in the degradation of these compounds and in their utilization as carbon and energy sources, or in the rescue of pyrimidine bases for nucleotide synthesis
VYA_21350	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
VYA_21360	COG0084	hydrolase, TatD family'
VYA_21380	COG4108	Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP
VYA_21420	COG3153	acetyltransferase
VYA_21430	COG3154	lipid carrier protein
VYA_21450	COG0826	peptidase U32
VYA_21460	COG0826	peptidase U32
VYA_21470	COG0534	Mate efflux family protein
VYA_21480	COG1846	Transcriptional regulator
VYA_21500	COG1185	polyribonucleotide nucleotidyltransferase activity
VYA_21510	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
VYA_21550	COG0195	Participates in both transcription termination and antitermination
VYA_21560	COG0779	Required for maturation of 30S ribosomal subunits
VYA_21570	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
VYA_21580	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
VYA_21590	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
VYA_21600	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
VYA_21610	COG0293	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit
VYA_21620	COG1534	Rna-binding protein
VYA_21630	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
VYA_21640	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
VYA_21650	COG2027	D-alanyl-D-alanine carboxypeptidase
VYA_21670	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)
VYA_21680	COG0739	heme binding
VYA_21710	COG0316	Belongs to the HesB IscA family
VYA_21720	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
VYA_21730	COG0628	permease
VYA_21750	COG2205	protein histidine kinase activity
VYA_21750	COG0784	Response regulator, receiver
VYA_21760	COG0747	negative chemotaxis
VYA_21780	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
VYA_21790	COG0444	Belongs to the ABC transporter superfamily
VYA_21800	COG4608	Belongs to the ABC transporter superfamily
VYA_21820	COG2971	BadF BadG BcrA BcrD
VYA_21850	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
VYA_21860	COG3842	ATPase activity
VYA_21880	COG1840	ABC-type Fe3 transport system, periplasmic component
VYA_21890	COG0004	ammonium transporteR
VYA_21920	COG3835	regulator
VYA_21930	COG2610	gluconate transmembrane transporter activity
VYA_21940	COG1929	Belongs to the glycerate kinase type-1 family
VYA_21950	COG1049	propionate catabolic process, 2-methylcitrate cycle
VYA_21960	COG1752	Esterase of the alpha-beta hydrolase superfamily
VYA_21970	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
VYA_21980	COG1643	Atp-dependent helicase
VYA_21990	COG1489	DNA binding
VYA_22010	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)
VYA_22030	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
VYA_22060	COG0842	Transport permease protein
VYA_22070	COG1131	(ABC) transporter
VYA_22080	COG0659	secondary active sulfate transmembrane transporter activity
VYA_22090	COG0288	reversible hydration of carbon dioxide
VYA_22120	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
VYA_22130	COG0508	dehydrogenase complex catalyzes the overall conversion of
VYA_22140	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
VYA_22150	COG2186	Transcriptional regulator
VYA_22190	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
VYA_22200	COG1459	type II secretion system
VYA_22220	COG0237	dephospho-CoA kinase activity
VYA_22230	COG4582	Cell division factor that enhances FtsZ-ring assembly. Directly interacts with FtsZ and promotes bundling of FtsZ protofilaments, with a reduction in FtsZ GTPase activity
VYA_22240	COG3024	Inhibits all the catalytic activities of DNA gyrase by preventing its interaction with DNA. Acts by binding directly to the C-terminal domain of GyrB, which probably disrupts DNA binding by the gyrase
VYA_22290	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
VYA_22300	COG4137	Cytochrome C assembly protein
VYA_22310	COG4536	flavin adenine dinucleotide binding
VYA_22320	COG1854	S-ribosylhomocysteine lyase activity
VYA_22350	COG0612	Peptidase, M16
VYA_22360	COG1238	metal cluster binding
VYA_22380	COG1883	Na -transporting methylmalonyl-CoA oxaloacetate decarboxylase, beta subunit
VYA_22390	COG0511	ligase activity, forming carbon-carbon bonds
VYA_22390	COG5016	pyruvate
VYA_22400	COG3630	sodium ion export across plasma membrane
VYA_22480	COG0527	aspartate kinase activity
VYA_22510	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
VYA_22520	COG1546	Belongs to the CinA family
VYA_22540	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
VYA_22590	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
VYA_22600	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
VYA_22620	COG0148	phosphopyruvate hydratase activity
VYA_22640	COG3956	TIGRFAM MazG family protein
VYA_22650	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
VYA_22690	COG0854	Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate
VYA_22700	COG1381	Involved in DNA repair and RecF pathway recombination
VYA_22710	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
VYA_22750	COG3086	response to oxidative stress
VYA_22780	COG1595	DNA-templated transcription, initiation
VYA_22790	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
VYA_22800	COG2938	An FAD assembly protein, which accelerates covalent attachment of the cofactor into other proteins. Plays an essential role in the assembly of succinate dehydrogenase (SDH, respiratory complex II), an enzyme complex that is a component of both the tricarboxylic acid cycle and the electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol. Required for flavinylation (covalent attachment of FAD) of the flavoprotein subunit SdhA of SDH
VYA_22840	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
VYA_22850	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
VYA_22860	COG3079	Belongs to the UPF0149 family
VYA_22870	COG3027	Activator of cell division through the inhibition of FtsZ GTPase activity, therefore promoting FtsZ assembly into bundles of protofilaments necessary for the formation of the division Z ring. It is recruited early at mid-cell but it is not essential for cell division
VYA_22880	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
VYA_22900	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
VYA_22920	COG0583	DNA-binding transcription factor activity
VYA_22950	COG0668	transmembrane transport
VYA_22960	COG0191	fructose-bisphosphate aldolase activity
VYA_22970	COG0126	phosphoglycerate kinase activity
VYA_23000	COG0021	Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate
VYA_23050	COG2356	endonuclease I
VYA_23060	COG1385	rRNA (uridine-N3-)-methyltransferase activity
VYA_23070	COG0189	ligase activity
VYA_23080	COG1678	Uncharacterized ACR, COG1678
VYA_23090	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
VYA_23120	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
VYA_23130	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
VYA_23140	COG0762	integral membrane protein
VYA_23170	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
VYA_23180	COG0635	Involved in the biosynthesis of porphyrin-containing compound
VYA_23220	COG1194	a g-specific adenine glycosylase
VYA_23230	COG2924	Could be a mediator in iron transactions between iron acquisition and iron-requiring processes, such as synthesis and or repair of Fe-S clusters in biosynthetic enzymes
VYA_23250	COG0840	transmembrane signaling receptor activity
VYA_23280	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
VYA_23280	COG3153	acetyltransferase
VYA_23320	COG0795	lipopolysaccharide-transporting ATPase activity
VYA_23330	COG0795	lipopolysaccharide-transporting ATPase activity
VYA_23340	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
VYA_23350	COG2927	DNA polymerase III (CHI subunit)
VYA_23360	COG0525	valine-tRNA ligase activity
VYA_23380	COG0456	acetyltransferase
VYA_23450	COG0251	oxidation-reduction process
VYA_23460	COG0204	Acyl-transferase
VYA_23480	COG5007	Belongs to the BolA IbaG family
VYA_23500	COG2854	intermembrane phospholipid transfer
VYA_23510	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
VYA_23520	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
VYA_23530	COG1127	ABC transporter
VYA_23550	COG0517	IMP dehydrogenase activity
VYA_23550	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
VYA_23570	COG1934	Involved in the assembly of lipopolysaccharide (LPS). Required for the translocation of LPS from the inner membrane to the outer membrane. May form a bridge between the inner membrane and the outer membrane, via interactions with LptC and LptD, thereby facilitating LPS transfer across the periplasm
VYA_23580	COG1137	ATPase activity
VYA_23600	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
VYA_23610	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
VYA_23630	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
VYA_23640	COG2239	Acts as a magnesium transporter
VYA_23650	COG0312	modulator of DNA gyrase
VYA_23660	COG3028	Belongs to the UPF0307 family
VYA_23670	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
VYA_23680	COG0564	pseudouridine synthase activity
VYA_23690	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
VYA_23700	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
VYA_23710	COG0312	modulator of DNA gyrase
VYA_23720	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
VYA_23730	COG3164	Protein of unknown function
VYA_23750	COG0424	maF-like protein
VYA_23760	COG2891	Involved in formation of the rod shape of the cell. May also contribute to regulation of formation of penicillin-binding proteins
VYA_23770	COG1792	Involved in formation and maintenance of cell shape
VYA_23780	COG1077	Cell shape determining protein MreB Mrl
VYA_23850	COG2165	general secretion pathway protein
VYA_23870	COG1459	type II secretion system
VYA_23880	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
VYA_23900	COG3409	Peptidoglycan-binding domain 1 protein
VYA_23900	COG3267	Type II secretory pathway component ExeA
VYA_23910	COG1450	Type ii and iii secretion system protein
VYA_23950	COG2200	EAL domain
VYA_23950	COG2199	diguanylate cyclase activity
VYA_23960	COG0629	single-stranded DNA binding
VYA_23970	COG2197	response regulator
VYA_23990	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
VYA_24010	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
VYA_24020	COG0527	aspartate kinase activity
VYA_24030	COG1410	methionine synthase
VYA_24030	COG0646	methionine synthase
VYA_24050	COG3335	DDE superfamily endonuclease
VYA_24100	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
VYA_24140	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
VYA_24150	COG0735	belongs to the Fur family
VYA_24180	COG0432	Pfam Uncharacterised protein family UPF0047
VYA_24200	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
VYA_24230	COG0359	binds to the 23S rRNA
VYA_24250	COG2965	DNA replication, synthesis of RNA primer
VYA_24260	COG0360	Binds together with S18 to 16S ribosomal RNA
VYA_24270	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
VYA_24280	COG0338	D12 class N6 adenine-specific DNA methyltransferase
VYA_24370	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
VYA_24390	COG0678	peroxiredoxin activity
VYA_24390	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
VYA_24400	COG0165	Argininosuccinate lyase
VYA_24400	COG1246	Belongs to the acetyltransferase family. ArgA subfamily
VYA_24430	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
VYA_24450	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
VYA_24470	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
VYA_24480	COG0527	aspartate kinase activity
VYA_24480	COG0460	homoserine dehydrogenase
VYA_24490	COG0626	cystathionine gamma-synthase activity
VYA_24510	COG0281	malic enzyme
VYA_24530	COG2906	2 iron, 2 sulfur cluster binding
VYA_24550	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
VYA_24580	COG2168	tRNA wobble position uridine thiolation
VYA_24590	COG2923	Belongs to the DsrF TusC family
VYA_24600	COG1553	Part of a sulfur-relay system required for 2-thiolation of 5-methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. Accepts sulfur from TusA and transfers it in turn to TusE
VYA_24610	COG2964	Protein conserved in bacteria
VYA_24620	COG0545	Peptidyl-prolyl cis-trans isomerase
VYA_24650	COG1446	asparaginase
VYA_24660	COG1047	Peptidyl-prolyl cis-trans
VYA_24690	COG2249	NAD(P)H dehydrogenase (quinone) activity
VYA_24700	COG0488	(ABC) transporter
VYA_24720	COG0429	hydrolase of the alpha beta-hydrolase fold
VYA_24730	COG3089	Belongs to the UPF0270 family
VYA_24740	COG3954	Phosphoribulokinase
VYA_24750	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
VYA_24790	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
VYA_24820	COG0546	phosphoglycolate phosphatase activity
VYA_24830	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
VYA_24840	COG0557	exoribonuclease II activity
VYA_24860	COG1017	nitric oxide dioxygenase activity
VYA_24860	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
VYA_24870	COG0790	COG0790 FOG TPR repeat, SEL1 subfamily
VYA_24880	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
VYA_24890	COG3242	Uncharacterized protein conserved in bacteria (DUF2065)
VYA_24900	COG0330	HflC and HflK could
VYA_24910	COG0330	HflC and HflK could
VYA_24920	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
VYA_24940	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)
VYA_24950	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
VYA_24970	COG0802	atpase or kinase
VYA_24980	COG1600	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)
VYA_24990	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
VYA_25000	COG1162	GTPase activity
VYA_25030	COG0471	metal ion transport
VYA_25070	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
VYA_25080	COG0607	Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS
VYA_25110	COG1045	serine acetyltransferase
VYA_25120	COG4942	peptidase
VYA_25170	COG1053	succinate dehydrogenase
VYA_25180	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
VYA_25220	COG1509	lysine 2,3-aminomutase activity
VYA_25270	COG0534	Mate efflux family protein
VYA_25300	COG3678	ATP-independent chaperone mediated protein folding
VYA_25310	COG0745	RESPONSE REGULATOR receiver
VYA_25320	COG2205	protein histidine kinase activity
VYA_25330	COG0219	Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S- adenosyl-L-methionine to the 2'-OH of the wobble nucleotide
VYA_25340	COG3030	protein affecting phage T7 exclusion by the F plasmid
VYA_25350	COG1027	Aspartate ammonia-lyase
VYA_25360	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
VYA_25370	COG4232	protein-disulfide reductase activity
VYA_25390	COG2095	MarC family integral membrane protein
VYA_25410	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
VYA_25430	COG0784	Response regulator, receiver
VYA_25430	COG2198	Histidine kinase
VYA_25430	COG2205	protein histidine kinase activity
VYA_25440	COG2814	Major facilitator Superfamily
VYA_25470	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
VYA_25480	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
VYA_25490	COG0511	ligase activity, forming carbon-carbon bonds
VYA_25500	COG0439	Biotin carboxylase
VYA_25520	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
VYA_25530	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
VYA_25540	COG2199	diguanylate cyclase activity
VYA_25580	COG1982	Orn Lys Arg decarboxylase major
VYA_25590	COG0531	amino acid
VYA_25600	COG3710	Transcriptional regulator
VYA_25610	COG0789	Transcriptional regulator
VYA_25620	COG0138	bifunctional purine biosynthesis protein purh
VYA_25630	COG0151	Belongs to the GarS family
VYA_25670	COG1253	flavin adenine dinucleotide binding
VYA_25710	COG1573	uracil-dna glycosylase
VYA_25730	COG2816	NAD+ diphosphatase activity
VYA_25740	COG3160	Binds RpoD and negatively regulates RpoD-mediated transcription activation by preventing the interaction between the primary sigma factor RpoD with the catalytic core of the RNA polymerase and with promoter DNA. May be involved in replacement of the RNA polymerase sigma subunit from RpoD to RpoS during the transition from exponential growth to the stationary phase
VYA_25750	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
VYA_25780	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
VYA_25790	COG0081	regulation of translation
VYA_25810	COG0250	Participates in transcription elongation, termination and antitermination
VYA_25820	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
VYA_25840	COG1072	(Pantothenic acid kinase))
VYA_25860	COG0812	UDP-N-acetylmuramate dehydrogenase activity
VYA_25880	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
VYA_25960	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
VYA_25970	COG0534	Mate efflux family protein
VYA_26000	COG2937	Belongs to the GPAT DAPAT family
VYA_26030	COG3161	chorismate lyase activity
VYA_26040	COG1580	Controls the rotational direction of flagella during chemotaxis
VYA_26050	COG0705	Rhomboid family
VYA_26090	COG2177	Part of the ABC transporter FtsEX involved in
VYA_26100	COG2884	Cell division ATP-binding protein ftsE
VYA_26110	COG0552	protein localization to endoplasmic reticulum
VYA_26120	COG0742	ribosomal rna small subunit methyltransferase
VYA_26230	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
VYA_26240	COG0640	Transcriptional regulator
VYA_26250	COG1280	lysine exporter protein (LysE YggA)
VYA_26260	COG2267	carboxylic ester hydrolase activity
VYA_26270	COG0561	phosphatase activity
VYA_26300	COG3148	PFAM DTW domain containing protein
VYA_26310	COG1011	Hydrolase
VYA_26320	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
VYA_26350	COG0019	diaminopimelate decarboxylase activity
VYA_26360	COG1965	Belongs to the frataxin family
VYA_26390	COG1587	Uroporphyrinogen-III synthase
VYA_26400	COG2959	enzyme of heme biosynthesis
VYA_26440	COG0633	Ferredoxin
VYA_26450	COG0043	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity
VYA_26480	COG3118	belongs to the thioredoxin family
VYA_26500	COG0248	Ppx GppA phosphatase
VYA_26510	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
VYA_26530	COG0514	ATP-dependent DNA helicase (RecQ)
VYA_26540	COG2962	Rard protein
VYA_26560	COG1280	lysine exporter protein (LysE YggA)
VYA_26570	COG0405	Gamma-glutamyltransferase
VYA_26580	COG0210	DNA helicase
VYA_26600	COG3220	belongs to the UPF0276 family
VYA_26640	COG2814	Major facilitator Superfamily
VYA_26660	COG0006	proline dipeptidase activity
VYA_26660	COG0006	proline dipeptidase activity
VYA_26690	COG2104	thiamine diphosphate biosynthetic process
VYA_26700	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
VYA_26740	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
VYA_26790	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
VYA_26800	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
VYA_26810	COG0551	DNA topoisomerase type I activity
VYA_26830	COG0758	DNA mediated transformation
VYA_26850	COG0242	peptide deformylase activity
VYA_26870	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
VYA_26870	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
VYA_26880	COG0569	domain protein
VYA_26890	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
VYA_26910	COG1272	protein, Hemolysin III
VYA_26920	COG4326	sporulation control protein
VYA_26940	COG3084	Protein conserved in bacteria
VYA_26960	COG2334	A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response
VYA_26970	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
VYA_26980	COG0204	Acyl-transferase
VYA_27000	COG0606	chelatase, subunit chli
VYA_27020	COG3978	acetolactate synthase activity
VYA_27030	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
VYA_27040	COG0129	dihydroxy-acid dehydratase activity
VYA_27060	COG0583	DNA-binding transcription factor activity
VYA_27070	COG2814	Major facilitator Superfamily
VYA_27090	COG0355	proton-transporting ATP synthase activity, rotational mechanism
VYA_27100	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
VYA_27110	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
VYA_27120	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
VYA_27140	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
VYA_27170	COG3312	ion transport
VYA_27180	COG1475	DNA binding
VYA_27190	COG1192	Involved in chromosome partitioning
VYA_27210	COG0445	tRNA wobble uridine modification
VYA_27220	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
VYA_27240	COG0706	membrane insertase activity
VYA_27250	COG0594	ribonuclease P activity
VYA_27270	COG1126	abc transporter atp-binding protein
VYA_27310	COG0395	ABC-type sugar transport system, permease component
VYA_27320	COG2723	6-phospho-beta-galactosidase activity
VYA_27330	COG3842	ATPase activity
VYA_27340	COG1609	Transcriptional regulator
VYA_27360	COG0747	negative chemotaxis
VYA_27380	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
VYA_27390	COG0444	Belongs to the ABC transporter superfamily
VYA_27400	COG4608	Belongs to the ABC transporter superfamily
VYA_27420	COG1609	Transcriptional regulator
VYA_27460	COG1472	Belongs to the glycosyl hydrolase 3 family
VYA_27470	COG0534	Mate efflux family protein
VYA_27490	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
VYA_27500	COG0564	pseudouridine synthase activity
VYA_27510	COG0561	phosphatase activity
VYA_27530	COG2199	diguanylate cyclase activity
VYA_27550	COG3152	Membrane
VYA_27570	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
VYA_27580	COG2162	N-hydroxyarylamine O-acetyltransferase activity
VYA_27590	COG0583	DNA-binding transcription factor activity
VYA_27650	COG2076	Multidrug Resistance protein
VYA_27670	COG0534	Mate efflux family protein
VYA_27710	COG1357	PFAM Pentapeptide repeats (8 copies)
VYA_27720	COG3047	cAMP biosynthetic process
VYA_27730	COG2358	TRAP transporter, solute receptor (TAXI family
VYA_27760	COG2814	Major facilitator Superfamily
VYA_27940	COG3005	denitrification pathway
VYA_27950	COG0243	molybdopterin cofactor binding
VYA_27990	COG0819	Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway
VYA_28000	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
VYA_28010	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
VYA_28020	COG1116	anion transmembrane transporter activity
VYA_28030	COG0351	phosphomethylpyrimidine kinase
VYA_28040	COG0312	modulator of DNA gyrase
VYA_28050	COG0312	modulator of DNA gyrase
VYA_28120	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
VYA_28140	COG0584	glycerophosphoryl diester phosphodiesterase
VYA_28150	COG0745	RESPONSE REGULATOR receiver
VYA_28190	COG0811	peptide transport
VYA_28200	COG0811	peptide transport
VYA_28210	COG0848	biopolymer transport protein
VYA_28250	COG1770	oligopeptidase
VYA_28260	COG2814	Major facilitator Superfamily
VYA_28270	COG0010	Belongs to the arginase family
VYA_28280	COG1166	arginine decarboxylase activity
VYA_28300	COG0189	ligase activity
VYA_28300	COG4067	protein conserved in archaea
VYA_28310	COG0189	ligase activity
VYA_28320	COG0583	DNA-binding transcription factor activity
VYA_28380	COG2204	response regulator
VYA_28390	COG3706	GGDEF domain
VYA_28410	COG1114	Component of the transport system for branched-chain amino acids
VYA_28440	COG0579	oxidoreductase
VYA_28470	COG3033	Beta-eliminating lyase
VYA_28500	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
VYA_28550	COG3706	GGDEF domain
VYA_28560	COG0415	Belongs to the DNA photolyase family
VYA_28570	COG3046	protein related to deoxyribodipyrimidine photolyase
VYA_28590	COG0229	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
VYA_28590	COG0225	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
VYA_28600	COG1765	OsmC-like protein
VYA_28650	COG1011	Hydrolase
VYA_28690	COG1511	domain protein
VYA_28690	COG3264	Mechanosensitive ion channel
VYA_28700	COG2866	Carboxypeptidase
VYA_28740	COG3104	oligopeptide transport
VYA_28750	COG1760	l-serine dehydratase
VYA_28800	COG1388	LysM domain
VYA_28800	COG0741	lytic transglycosylase activity
VYA_28840	COG1815	bacterial-type flagellum-dependent cell motility
VYA_28850	COG1558	bacterial-type flagellum-dependent cell motility
VYA_28860	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
VYA_28880	COG4787	bacterial-type flagellum-dependent cell motility
VYA_28890	COG4786	Flagellar basal body rod
VYA_28900	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
VYA_28910	COG1706	bacterial-type flagellum-dependent cell motility
VYA_28930	COG1256	bacterial-type flagellum assembly
VYA_28930	COG4786	Flagellar basal body rod
VYA_28970	COG2089	acid synthase
VYA_29030	COG0583	DNA-binding transcription factor activity
VYA_29080	COG1360	Flagellar Motor Protein
VYA_29090	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
VYA_29100	COG1191	sigma factor activity
VYA_29110	COG1580	Controls the rotational direction of flagella during chemotaxis
VYA_29140	COG1516	flagellar protein fliS
VYA_29150	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
VYA_29180	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
VYA_29230	COG1987	bacterial-type flagellum assembly
VYA_29290	COG1677	Flagellar hook-basal body complex protein FliE
VYA_29380	COG0346	lactoylglutathione lyase activity
VYA_29430	COG0745	RESPONSE REGULATOR receiver
VYA_29480	COG0156	8-amino-7-oxononanoate synthase activity
VYA_29490	COG1063	alcohol dehydrogenase
VYA_29590	COG0668	transmembrane transport
VYA_29610	COG1304	FMN binding
VYA_29620	COG0583	DNA-binding transcription factor activity
VYA_29630	COG1505	serine-type exopeptidase activity
VYA_29650	COG1067	ATP-dependent peptidase activity
VYA_29680	COG1247	-acetyltransferase
VYA_29690	COG0437	4 iron, 4 sulfur cluster binding
VYA_29700	COG0348	domain, Protein
VYA_29710	COG0640	Transcriptional regulator
VYA_29740	COG1122	ATPase activity
VYA_29760	COG1566	PFAM secretion protein HlyD family protein
VYA_29820	COG0813	purine-nucleoside phosphorylase activity
VYA_29830	COG3272	Protein of unknown function (DUF1722)
VYA_29850	COG0415	Belongs to the DNA photolyase family
VYA_29860	COG1376	ErfK ybiS ycfS ynhG family protein
VYA_29860	COG1388	LysM domain
VYA_29880	COG0513	Belongs to the DEAD box helicase family
VYA_29900	COG0573	inorganic phosphate transmembrane transporter activity
VYA_29910	COG0581	inorganic phosphate transmembrane transporter activity
VYA_29920	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
VYA_29930	COG3706	GGDEF domain
VYA_29950	COG2304	oxidoreductase activity
VYA_29990	COG0714	Associated with various cellular activities
VYA_30000	COG0840	transmembrane signaling receptor activity
VYA_30020	COG2197	response regulator
VYA_30030	COG0110	maltose O-acetyltransferase activity
VYA_30040	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_30050	COG4251	negative regulation of phosphorylation
VYA_30050	COG5001	Diguanylate cyclase
VYA_30050	COG3706	GGDEF domain
VYA_30050	COG2203	Gaf domain
VYA_30100	COG1455	protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity
VYA_30110	COG1455	protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity
VYA_30120	COG3241	Transfers electrons from cytochrome c551 to cytochrome oxidase
VYA_30140	COG1252	NADH dehydrogenase
VYA_30150	COG1301	dicarboxylic acid transport
VYA_30160	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
VYA_30170	COG2706	6-phosphogluconolactonase activity
VYA_30180	COG1881	PFAM PEBP family protein
VYA_30200	COG0798	PFAM Bile acid sodium symporter
VYA_30260	COG0814	amino acid
VYA_30280	COG3314	Sporulation integral membrane protein YlbJ
VYA_30310	COG0739	heme binding
VYA_30340	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
VYA_30350	COG0697	spore germination
VYA_30380	COG0179	Fumarylacetoacetate (FAA) hydrolase
VYA_30410	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
VYA_30420	COG1280	lysine exporter protein (LysE YggA)
VYA_30430	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
VYA_30440	COG1565	acr, cog1565
VYA_30440	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
VYA_30460	COG3175	Exerts its effect at some terminal stage of cytochrome c oxidase synthesis, probably by being involved in the insertion of the copper B into subunit I
VYA_30470	COG1845	cytochrome c oxidase, subunit III
VYA_30510	COG1612	heme a metabolic process
VYA_30540	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
VYA_30550	COG0840	transmembrane signaling receptor activity
VYA_30560	COG0021	Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate
VYA_30600	COG2897	thiosulfate sulfurtransferase activity
VYA_30630	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
VYA_30640	COG0303	'Molybdopterin
VYA_30660	COG1914	H( )-stimulated, divalent metal cation uptake system
VYA_30710	COG4989	oxidoreductase activity
VYA_30740	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
VYA_30740	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
VYA_30760	COG0814	amino acid
VYA_30770	COG1360	Flagellar Motor Protein
VYA_30780	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
VYA_30790	COG1013	pyruvate-flavodoxin oxidoreductase activity
VYA_30790	COG1143	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
VYA_30790	COG0674	pyruvate-flavodoxin oxidoreductase activity
VYA_30790	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
VYA_30820	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
VYA_30830	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
VYA_30840	COG1757	Na H antiporter
VYA_30850	COG0786	glutamate:sodium symporter activity
VYA_30860	COG1826	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes
VYA_30870	COG0745	RESPONSE REGULATOR receiver
VYA_30880	COG2205	protein histidine kinase activity
VYA_30920	COG1247	-acetyltransferase
VYA_30950	COG1566	PFAM secretion protein HlyD family protein
VYA_30970	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
VYA_30980	COG0076	glutamate decarboxylase activity
VYA_31050	COG4176	ABC-type proline glycine betaine transport system permease component
VYA_31060	COG4175	Glycine betaine
VYA_31060	COG0517	IMP dehydrogenase activity
VYA_31120	COG3300	MHYT domain
VYA_31120	COG5001	Diguanylate cyclase
VYA_31130	COG0784	Response regulator, receiver
VYA_31130	COG2205	protein histidine kinase activity
VYA_31220	COG1922	lipopolysaccharide N-acetylmannosaminouronosyltransferase activity
VYA_31240	COG0297	glycogen (starch) synthase activity
VYA_31240	COG0438	transferase activity, transferring glycosyl groups
VYA_31300	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
VYA_31310	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
VYA_31320	COG0489	protein tyrosine kinase activity
VYA_31320	COG3206	protein involved in exopolysaccharide biosynthesis
VYA_31350	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
VYA_31400	COG1794	racemase activity, acting on amino acids and derivatives
VYA_31420	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
VYA_31430	COG5001	Diguanylate cyclase
VYA_31440	COG1869	D-ribose catabolic process
VYA_31450	COG0738	Major facilitator superfamily
VYA_31470	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
VYA_31480	COG1609	Transcriptional regulator
VYA_31500	COG0789	Transcriptional regulator
VYA_31540	COG1289	transmembrane transporter activity
VYA_31550	COG0210	DNA helicase
VYA_31570	COG1879	ABC-type sugar transport system periplasmic component
VYA_31580	COG2198	Histidine kinase
VYA_31580	COG0784	Response regulator, receiver
VYA_31580	COG2205	protein histidine kinase activity
VYA_31620	COG3119	arylsulfatase activity
VYA_31630	COG3119	arylsulfatase activity
VYA_31640	COG3063	Type IV pilus biogenesis stability protein PilW
VYA_31650	COG0714	Associated with various cellular activities
VYA_31720	COG0583	DNA-binding transcription factor activity
VYA_31730	COG3111	PFAM Bacterial OB fold (BOF) protein
VYA_31770	COG0641	radical SAM
VYA_31820	COG3069	C4-dicarboxylate transmembrane transporter activity
VYA_31880	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
VYA_31890	COG0778	Nitroreductase
VYA_31900	COG0835	chemotaxis
VYA_31900	COG0784	Response regulator, receiver
VYA_31910	COG2165	general secretion pathway protein
VYA_31930	COG2962	Rard protein
VYA_31940	COG3788	relative of glutathione S-transferase, MAPEG superfamily
VYA_31960	COG0671	phosphoesterase, PA-phosphatase related
VYA_32020	COG2067	long-chain fatty acid transport protein
VYA_32050	COG1902	pentaerythritol trinitrate reductase activity
VYA_32060	COG0346	lactoylglutathione lyase activity
VYA_32070	COG0420	3'-5' exonuclease activity
VYA_32080	COG0419	ATPase involved in DNA repair
VYA_32100	COG3469	chitinase activity
VYA_32140	COG3040	lipid binding
VYA_32170	COG0509	glycine decarboxylation via glycine cleavage system
VYA_32180	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
VYA_32260	COG3925	protein-phosphocysteine-D-fructose-phosphotransferase system transporter activity
VYA_32260	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
VYA_32260	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
VYA_32270	COG1105	Belongs to the carbohydrate kinase PfkB family
VYA_32280	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
VYA_32280	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
VYA_32290	COG1609	Transcriptional regulator
VYA_32340	COG0668	transmembrane transport
VYA_32380	COG2239	Acts as a magnesium transporter
VYA_32400	COG0387	Pfam Sodium calcium exchanger
VYA_32420	COG0765	amino acid transport
VYA_32430	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
VYA_32440	COG0765	amino acid transport
VYA_32450	COG1126	abc transporter atp-binding protein
VYA_32460	COG1979	alcohol dehydrogenase
VYA_32470	COG2207	Transcriptional regulator
VYA_32480	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
VYA_32500	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
VYA_32530	COG3437	response regulator, receiver
VYA_32530	COG0784	Response regulator, receiver
VYA_32540	COG0546	phosphoglycolate phosphatase activity
VYA_32560	COG0513	Belongs to the DEAD box helicase family
VYA_32590	COG3038	cytochrome b561
VYA_32610	COG2116	formate transmembrane transporter activity
VYA_32620	COG0583	DNA-binding transcription factor activity
VYA_32640	COG3593	DNA synthesis involved in DNA repair
VYA_32650	COG0737	Belongs to the 5'-nucleotidase family
VYA_32660	COG0861	Integral membrane protein TerC family
VYA_32700	COG2267	carboxylic ester hydrolase activity
VYA_32710	COG2067	long-chain fatty acid transport protein
VYA_32740	COG2050	protein possibly involved in aromatic compounds catabolism
VYA_32760	COG4533	DNA binding
VYA_32820	COG0484	heat shock protein binding
VYA_32840	COG3300	MHYT domain
VYA_32840	COG5001	Diguanylate cyclase
VYA_32850	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
VYA_32870	COG4181	ATPase activity
VYA_32880	COG3127	ABC-type transport system involved in lysophospholipase L1, biosynthesis, permease component
VYA_32900	COG1984	allophanate hydrolase subunit 2
VYA_32910	COG2049	5-oxoprolinase (ATP-hydrolyzing) activity
VYA_32930	COG3447	MASE1 domain protein
VYA_32930	COG5002	protein histidine kinase activity
VYA_32930	COG5001	Diguanylate cyclase
VYA_32960	COG0583	DNA-binding transcription factor activity
VYA_32970	COG1042	CoA-binding domain protein
VYA_32970	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
VYA_32970	COG0045	succinate-CoA ligase (ADP-forming) activity
VYA_33010	COG0023	Translation Initiation Factor
VYA_33030	COG2963	transposase activity
VYA_33040	COG2801	Transposase and inactivated derivatives
VYA_33080	COG3140	Belongs to the UPF0181 family
VYA_33130	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
VYA_33140	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
VYA_33200	COG3706	GGDEF domain
VYA_33200	COG2203	Gaf domain
VYA_33200	COG5001	Diguanylate cyclase
VYA_33200	COG4251	negative regulation of phosphorylation
VYA_33220	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
VYA_33230	COG4149	molybdate abc transporter
VYA_33240	COG0725	ABC transporter, periplasmic molybdate-binding protein
VYA_33250	COG0725	ABC transporter, periplasmic molybdate-binding protein
VYA_33280	COG3111	PFAM Bacterial OB fold (BOF) protein
VYA_33300	COG4067	protein conserved in archaea
VYA_33300	COG0189	ligase activity
VYA_33330	COG0534	Mate efflux family protein
VYA_33340	COG0602	queuosine metabolic process
VYA_33350	COG1328	CTP reductase activity
VYA_33430	COG0402	S-adenosylhomocysteine deaminase activity
VYA_33500	COG0628	permease
VYA_33520	COG1566	PFAM secretion protein HlyD family protein
VYA_33550	COG0332	Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids
VYA_33560	COG3118	belongs to the thioredoxin family
VYA_33640	COG2116	formate transmembrane transporter activity
VYA_33660	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
VYA_33670	COG3706	GGDEF domain
VYA_33710	COG0277	FAD linked oxidase domain protein
VYA_33720	COG2425	protein containing a von Willebrand factor type A (vWA) domain
VYA_33750	COG2008	Catalyzes the cleavage of L-allo-threonine and L- threonine to glycine and acetaldehyde
VYA_33770	COG1288	antiporter activity
VYA_33790	COG2814	Major facilitator Superfamily
VYA_33840	COG0583	DNA-binding transcription factor activity
VYA_33880	COG1132	(ABC) transporter
VYA_33940	COG0318	PFAM AMP-dependent synthetase and ligase
VYA_34000	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
VYA_34030	COG0786	glutamate:sodium symporter activity
VYA_34040	COG0628	permease
VYA_34130	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
VYA_34130	COG2146	nitrite reductase [NAD(P)H] activity
VYA_34140	COG1116	anion transmembrane transporter activity
VYA_34150	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
VYA_34160	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
VYA_34170	COG3707	response regulator
VYA_34200	COG1648	precorrin-2 dehydrogenase activity
VYA_34200	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
VYA_34210	COG0243	molybdopterin cofactor binding
VYA_34230	COG0814	amino acid
VYA_34270	COG1785	Belongs to the alkaline phosphatase family
VYA_34280	COG5002	protein histidine kinase activity
VYA_34290	COG0745	RESPONSE REGULATOR receiver
VYA_34330	COG0443	Heat shock 70 kDa protein
VYA_34360	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
VYA_34430	COG1053	succinate dehydrogenase
VYA_34430	COG3976	FMN-binding domain protein
VYA_34430	COG0431	NADPH-dependent FMN reductase
VYA_34440	COG0625	glutathione transferase activity
VYA_34480	COG4160	amino acid transport
VYA_34490	COG4215	(ABC) transporter
VYA_34500	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
VYA_34510	COG1126	abc transporter atp-binding protein
VYA_34550	COG0446	pyridine nucleotide-disulphide oxidoreductase
VYA_34550	COG1902	pentaerythritol trinitrate reductase activity
VYA_34560	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_34580	COG1024	Enoyl-CoA hydratase
VYA_34590	COG1024	Enoyl-CoA hydratase
VYA_34620	COG0183	Belongs to the thiolase family
VYA_34640	COG1960	acyl-CoA dehydrogenase activity
VYA_34650	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
VYA_34660	COG1024	Enoyl-CoA hydratase
VYA_34700	COG3278	Belongs to the heme-copper respiratory oxidase family
VYA_34730	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
VYA_34740	COG0513	Belongs to the DEAD box helicase family
VYA_34750	COG4776	Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction
VYA_34780	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
VYA_34830	COG0583	DNA-binding transcription factor activity
VYA_34840	COG1073	alpha beta
VYA_34960	COG3706	GGDEF domain
VYA_34970	COG2252	PERMEase
VYA_34980	COG1119	ATPase activity
VYA_35020	COG0513	Belongs to the DEAD box helicase family
VYA_35030	COG0523	cobalamin synthesis protein
VYA_35090	COG3416	Protein conserved in bacteria
VYA_35120	COG3530	Putative quorum-sensing-regulated virulence factor
VYA_35170	COG3186	Phenylalanine-4-hydroxylase
VYA_35180	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
VYA_35190	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
VYA_35240	COG3155	Displays glyoxalase activity, catalyzing the conversion of glyoxal to glycolate
VYA_35250	COG1454	alcohol dehydrogenase
VYA_35260	COG2133	pyrroloquinoline quinone binding
VYA_35280	COG0783	Belongs to the Dps family
VYA_35310	COG1136	(ABC) transporter
VYA_35310	COG0577	efflux transmembrane transporter activity
VYA_35320	COG0577	efflux transmembrane transporter activity
VYA_35320	COG1136	(ABC) transporter
VYA_35350	COG1278	Cold shock
VYA_35410	COG0545	Peptidyl-prolyl cis-trans isomerase
VYA_35460	COG2197	response regulator
VYA_35470	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
VYA_35490	COG0840	transmembrane signaling receptor activity
VYA_35530	COG2195	Cleaves the N-terminal amino acid of tripeptides
VYA_35560	COG2197	response regulator
VYA_35570	COG3850	Histidine kinase
VYA_35610	COG3005	denitrification pathway
VYA_35650	COG0183	Belongs to the thiolase family
VYA_35670	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
VYA_35680	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
VYA_35730	COG1522	sequence-specific DNA binding
VYA_35770	COG2827	Endonuclease containing a URI domain
VYA_35820	COG0673	inositol 2-dehydrogenase activity
VYA_35990	COG0583	DNA-binding transcription factor activity
VYA_36040	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
VYA_36080	COG1566	PFAM secretion protein HlyD family protein
VYA_36090	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
VYA_36100	COG2239	Acts as a magnesium transporter
VYA_36110	COG1457	Belongs to the purine-cytosine permease (2.A.39) family
VYA_36120	COG0402	S-adenosylhomocysteine deaminase activity
VYA_36150	COG1418	mRNA catabolic process
VYA_36170	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
VYA_36200	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
VYA_36230	COG4221	oxidoreductase activity
VYA_36240	COG0745	RESPONSE REGULATOR receiver
VYA_36250	COG2205	protein histidine kinase activity
VYA_36280	COG2194	sulfuric ester hydrolase activity
VYA_36300	COG2814	Major facilitator Superfamily
VYA_36350	COG0583	DNA-binding transcription factor activity
VYA_36360	COG2249	NAD(P)H dehydrogenase (quinone) activity
VYA_36390	COG0583	DNA-binding transcription factor activity
VYA_36440	COG0366	Alpha amylase catalytic
VYA_36450	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
VYA_36460	COG0784	Response regulator, receiver
VYA_36460	COG0835	chemotaxis
VYA_36480	COG0748	coenzyme F420 binding
VYA_36490	COG3721	Heme iron utilization protein
VYA_36510	COG0810	Interacts with outer membrane receptor proteins that carry out high-affinity binding and energy dependent uptake into the periplasmic space of specific substrates. It could act to transduce energy from the cytoplasmic membrane to specific energy- requiring processes in the outer membrane, resulting in the release into the periplasm of ligands bound by these outer membrane proteins
VYA_36520	COG0811	peptide transport
VYA_36530	COG0848	biopolymer transport protein
VYA_36550	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
VYA_36560	COG4559	Part of the ABC transporter complex HmuTUV involved in hemin import. Responsible for energy coupling to the transport system
VYA_36660	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
VYA_36680	COG3217	Mosc domain protein beta barrel domain protein
VYA_36680	COG0633	Ferredoxin
VYA_36680	COG3217	Mosc domain protein beta barrel domain protein
VYA_36680	COG0633	Ferredoxin
VYA_36690	COG0401	homolog of Blt101
VYA_36710	COG2354	Protein conserved in bacteria
VYA_36740	COG1196	nuclear chromosome segregation
VYA_36780	COG1349	DNA-binding transcription factor activity
VYA_36800	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
VYA_36810	COG0738	Major facilitator superfamily
VYA_36870	COG3833	ABC-type maltose transport systems, permease component
VYA_36880	COG1175	transmembrane transport
VYA_36900	COG3842	ATPase activity
VYA_36920	COG1309	transcriptional regulator
VYA_36930	COG2130	NADP-dependent
VYA_36950	COG0753	catalase activity
VYA_36960	COG2084	Dehydrogenase
VYA_36980	COG0583	DNA-binding transcription factor activity
VYA_36990	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
VYA_37000	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
VYA_37020	COG2207	Transcriptional regulator
VYA_37030	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
VYA_37030	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
VYA_37030	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
VYA_37040	COG1482	cell wall glycoprotein biosynthetic process
VYA_37050	COG2211	Major facilitator Superfamily
VYA_37060	COG1486	melibiose metabolic process
VYA_37070	COG2169	Transcriptional regulator
VYA_37090	COG2820	Catalyzes the reversible phosphorylytic cleavage of uridine and deoxyuridine to uracil and ribose- or deoxyribose-1- phosphate. The produced molecules are then utilized as carbon and energy sources or in the rescue of pyrimidine bases for nucleotide synthesis
VYA_37110	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
VYA_37120	COG2249	NAD(P)H dehydrogenase (quinone) activity
VYA_37130	COG2233	PERMEase
VYA_37140	COG0402	S-adenosylhomocysteine deaminase activity
VYA_37170	COG3383	formate dehydrogenase (NAD+) activity
VYA_37200	COG3696	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
VYA_37250	COG0604	alcohol dehydrogenase
VYA_37250	COG3321	synthase
VYA_37250	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_37290	COG1247	-acetyltransferase
VYA_37300	COG1505	serine-type exopeptidase activity
VYA_37320	COG0589	response to stress
VYA_37370	COG4667	esterase of the alpha-beta hydrolase superfamily
VYA_37380	COG1741	Belongs to the pirin family
VYA_37390	COG1278	Cold shock
VYA_37420	COG0678	peroxiredoxin activity
VYA_37420	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
VYA_37440	COG1686	Belongs to the peptidase S11 family
VYA_37460	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
VYA_37470	COG2249	NAD(P)H dehydrogenase (quinone) activity
VYA_37480	COG0583	DNA-binding transcription factor activity
VYA_37490	COG0625	glutathione transferase activity
VYA_37510	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
VYA_37530	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_37560	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_37580	COG0583	DNA-binding transcription factor activity
VYA_37590	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
VYA_37590	COG2207	Transcriptional regulator
VYA_37600	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
VYA_37650	COG0513	Belongs to the DEAD box helicase family
VYA_37690	COG0589	response to stress
VYA_37700	COG3122	Protein conserved in bacteria
VYA_37730	COG0583	DNA-binding transcription factor activity
VYA_37740	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
VYA_37750	COG1387	Histidinol phosphatase and related hydrolases of the PHP family
VYA_37760	COG1072	(Pantothenic acid kinase))
VYA_37780	COG1063	alcohol dehydrogenase
VYA_37790	COG2213	PTS system mannitol-specific
VYA_37800	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
VYA_37840	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
VYA_37850	COG0574	Belongs to the PEP-utilizing enzyme family
VYA_37850	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)
VYA_37870	COG3302	dmso reductase anchor subunit
VYA_37880	COG0437	4 iron, 4 sulfur cluster binding
VYA_37890	COG0243	molybdopterin cofactor binding
VYA_37900	COG3381	protein complex oligomerization
VYA_37930	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)
VYA_37960	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
VYA_37990	COG0786	glutamate:sodium symporter activity
VYA_38020	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
VYA_38060	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
VYA_38110	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
VYA_38170	COG3710	Transcriptional regulator
VYA_38190	COG3710	Transcriptional regulator
VYA_38220	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
VYA_38260	COG1342	Belongs to the UPF0251 family
VYA_38280	COG4176	ABC-type proline glycine betaine transport system permease component
VYA_38290	COG3448	diguanylate cyclase activity
VYA_38290	COG4175	Glycine betaine
VYA_38300	COG3015	lipoprotein NlpE involved in copper resistance
VYA_38310	COG0583	DNA-binding transcription factor activity
VYA_38390	COG1335	isochorismatase
VYA_38430	COG0346	lactoylglutathione lyase activity
VYA_38460	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
VYA_38480	COG0607	Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS
VYA_38530	COG0435	Glutathione S-transferase
VYA_38540	COG0431	NADPH-dependent FMN reductase
VYA_38550	COG0583	DNA-binding transcription factor activity
VYA_38560	COG4628	conserved protein (DUF2132)
VYA_38570	COG0488	(ABC) transporter
VYA_38600	COG2814	Major facilitator Superfamily
VYA_38670	COG0628	permease
VYA_38680	COG3110	Uncharacterized protein conserved in bacteria (DUF2057)
VYA_38700	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
VYA_38720	COG4628	conserved protein (DUF2132)
VYA_38730	COG0583	DNA-binding transcription factor activity
VYA_38770	COG1234	tRNA 3'-trailer cleavage
VYA_38800	COG1686	Belongs to the peptidase S11 family
VYA_38830	COG2335	COG2335, Secreted and surface protein containing fasciclin-like repeats
VYA_38850	COG3397	chitin binding
VYA_38880	COG0840	transmembrane signaling receptor activity
VYA_38890	COG4667	esterase of the alpha-beta hydrolase superfamily
VYA_38900	COG1454	alcohol dehydrogenase
VYA_38910	COG0235	Class ii aldolase
VYA_38920	COG4154	Belongs to the RbsD FucU family
VYA_38930	COG1070	Carbohydrate kinase
VYA_38940	COG2407	Converts the aldose L-fucose into the corresponding ketose L-fuculose
VYA_38950	COG0738	Major facilitator superfamily
VYA_38960	COG1349	DNA-binding transcription factor activity
VYA_38970	COG2095	MarC family integral membrane protein
VYA_38980	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
VYA_39050	COG1301	dicarboxylic acid transport
VYA_39060	COG3339	Conserved Protein
VYA_39070	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
VYA_39080	COG0700	Nucleoside recognition
VYA_39090	COG3366	ferrous iron transmembrane transporter activity
VYA_39100	COG0366	Alpha amylase catalytic
VYA_39110	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
VYA_39120	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
VYA_39130	COG1640	4-alpha-glucanotransferase
VYA_39140	COG0058	SHG alpha-glucan phosphorylase activity
VYA_39180	COG1999	signal sequence binding
VYA_39200	COG1263	PTS System
VYA_39200	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
VYA_39210	COG1162	GTPase activity
VYA_39220	COG3633	Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
VYA_39250	COG0531	amino acid
VYA_39260	COG1982	Orn Lys Arg decarboxylase major
VYA_39310	COG4580	involved in the transport of maltose and maltodextrins
VYA_39330	COG3706	GGDEF domain
VYA_39370	COG4771	TonB-dependent receptor
VYA_39380	COG0583	DNA-binding transcription factor activity
VYA_39390	COG4607	ABC-type enterochelin transport system periplasmic component
VYA_39400	COG4606	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
VYA_39410	COG4605	iron ion homeostasis
VYA_39420	COG4604	ABC transporter, ATP-binding protein
VYA_39480	COG0583	DNA-binding transcription factor activity
VYA_39490	COG1335	isochorismatase
VYA_39510	COG0074	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit
VYA_39520	COG1304	FMN binding
VYA_39530	COG0549	Belongs to the carbamate kinase family
VYA_39550	COG1457	Belongs to the purine-cytosine permease (2.A.39) family
VYA_39570	COG0826	peptidase U32
VYA_39600	COG1136	(ABC) transporter
VYA_39610	COG0577	efflux transmembrane transporter activity
VYA_39670	COG3634	alkyl hydroperoxide reductase activity
VYA_39680	COG1278	Cold shock
VYA_39690	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
VYA_39700	COG1522	sequence-specific DNA binding
VYA_39710	COG0006	proline dipeptidase activity
VYA_39760	COG0596	Alpha beta hydrolase
VYA_39850	COG0513	Belongs to the DEAD box helicase family
VYA_39870	COG0657	acetylesterase activity
VYA_39890	COG0583	DNA-binding transcription factor activity
VYA_39900	COG1312	Catalyzes the dehydration of D-mannonate
VYA_39910	COG0246	Mannitol dehydrogenase
VYA_39920	COG1904	glucuronate isomerase
VYA_39930	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
VYA_39940	COG0800	Aldolase
VYA_39970	COG3250	beta-galactosidase activity
VYA_39990	COG2186	Transcriptional regulator
VYA_40030	COG1132	(ABC) transporter
VYA_40100	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
VYA_40150	COG0259	pyridoxamine-phosphate oxidase activity
VYA_40260	COG1444	tRNA N-acetyltransferase activity
VYA_40330	COG0772	Belongs to the SEDS family
VYA_40350	COG1566	PFAM secretion protein HlyD family protein
VYA_40380	COG1136	(ABC) transporter
VYA_40420	COG3275	phosphorelay sensor kinase activity
VYA_40430	COG3279	Response regulator of the LytR AlgR family
VYA_40450	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
VYA_40510	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_40580	COG1999	signal sequence binding
VYA_40660	COG0786	glutamate:sodium symporter activity
VYA_40680	COG1131	(ABC) transporter
VYA_40690	COG0786	glutamate:sodium symporter activity
VYA_40770	COG0122	3-methyladenine DNA glycosylase 8-oxoguanine DNA glycosylase
VYA_40780	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
VYA_40800	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
VYA_40860	COG3123	guanosine phosphorylase activity
VYA_40890	COG1609	Transcriptional regulator
VYA_40900	COG1609	Transcriptional regulator
VYA_40920	COG0667	Aldo Keto reductase
VYA_40930	COG0667	Aldo Keto reductase
VYA_40990	COG3039	Transposase
VYA_41170	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
VYA_41230	COG0640	Transcriptional regulator
VYA_41260	COG0786	glutamate:sodium symporter activity
VYA_41740	COG1192	Involved in chromosome partitioning
VYA_42030	COG1404	Belongs to the peptidase S8 family
VYA_42220	COG1793	dna ligase
VYA_42330	COG0210	DNA helicase
VYA_42770	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
VYA_42990	COG0210	DNA helicase
VYA_43190	COG0330	HflC and HflK could
VYA_43250	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
VYA_43350	COG3344	reverse transcriptase
VYA_43430	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
VYA_43580	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
VYA_43630	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
VYA_43640	COG1061	Type III restriction enzyme res subunit
VYA_43650	COG1002	Type II restriction enzyme, methylase subunits
VYA_43870	COG0561	phosphatase activity
VYA_43900	COG2160	L-arabinose isomerase activity
VYA_43910	COG0235	Class ii aldolase
VYA_43920	COG1069	ribulokinase activity
VYA_43930	COG1879	ABC-type sugar transport system periplasmic component
VYA_43940	COG1129	ABC transporter
VYA_43950	COG1172	Belongs to the binding-protein-dependent transport system permease family
VYA_44020	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
VYA_44030	COG0840	transmembrane signaling receptor activity
VYA_44050	COG3335	DDE superfamily endonuclease
VYA_44060	COG4580	involved in the transport of maltose and maltodextrins
VYA_44070	COG1874	Beta-galactosidase
VYA_44090	COG3833	ABC-type maltose transport systems, permease component
VYA_44100	COG1175	transmembrane transport
VYA_44110	COG2182	Extracellular solute-binding protein
VYA_44120	COG3842	ATPase activity
VYA_44130	COG1840	ABC-type Fe3 transport system, periplasmic component
VYA_44150	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
VYA_44210	COG1733	regulation of RNA biosynthetic process
VYA_44250	COG1001	Belongs to the metallo-dependent hydrolases superfamily. Adenine deaminase family
VYA_44260	COG1917	Cupin 2, conserved barrel domain protein
VYA_44260	COG2169	Transcriptional regulator
VYA_44370	COG0318	PFAM AMP-dependent synthetase and ligase
VYA_44400	COG1012	belongs to the aldehyde dehydrogenase family
VYA_44460	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
VYA_44480	COG4569	acetaldehyde dehydrogenase (acetylating) activity
VYA_44490	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)
VYA_44500	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_44520	COG1192	Involved in chromosome partitioning
VYA_44540	COG2814	Major facilitator Superfamily
VYA_44570	COG1053	succinate dehydrogenase
VYA_44590	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_44600	COG1902	pentaerythritol trinitrate reductase activity
VYA_44610	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_44670	COG0183	Belongs to the thiolase family
VYA_44680	COG1024	Enoyl-CoA hydratase
VYA_44700	COG3706	GGDEF domain
VYA_44760	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
VYA_44780	COG2244	polysaccharide biosynthetic process
VYA_44790	COG1216	Glycosyl transferase, family 2
VYA_44810	COG0463	Glycosyl transferase, family 2
VYA_44810	COG1216	Glycosyl transferase, family 2
VYA_44860	COG2204	response regulator
VYA_44870	COG4974	Belongs to the 'phage' integrase family
VYA_44880	COG0438	transferase activity, transferring glycosyl groups
VYA_44930	COG0546	phosphoglycolate phosphatase activity
VYA_44930	COG0382	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate
VYA_44940	COG2076	Multidrug Resistance protein
VYA_45030	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
VYA_45080	COG0367	asparagine synthase
VYA_45090	COG0297	glycogen (starch) synthase activity
VYA_45100	COG0438	transferase activity, transferring glycosyl groups
VYA_45110	COG0438	transferase activity, transferring glycosyl groups
VYA_45140	COG2176	DNA-directed DNA polymerase activity
VYA_45160	COG1213	nucleotidyl transferase
VYA_45170	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
VYA_45180	COG0574	Belongs to the PEP-utilizing enzyme family
VYA_45180	COG3848	Pyruvate phosphate dikinase
VYA_45210	COG3273	potassium ion transport
VYA_45210	COG0471	metal ion transport
VYA_45230	COG1960	acyl-CoA dehydrogenase activity
VYA_45240	COG1960	acyl-CoA dehydrogenase activity
VYA_45290	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_45330	COG2086	electron transfer activity
VYA_45370	COG2207	Transcriptional regulator
VYA_45390	COG1960	acyl-CoA dehydrogenase activity
VYA_45440	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
VYA_45450	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
VYA_45460	COG0387	Pfam Sodium calcium exchanger
VYA_45480	COG2239	Acts as a magnesium transporter
VYA_45500	COG0583	DNA-binding transcription factor activity
VYA_45510	COG0668	transmembrane transport
VYA_45540	COG1566	PFAM secretion protein HlyD family protein
VYA_45550	COG0628	permease
VYA_45570	COG0653	protein targeting
VYA_45580	COG4115	mRNA cleavage
VYA_45590	COG2161	toxin-antitoxin pair type II binding
VYA_45610	COG1028	Short-chain dehydrogenase reductase Sdr
VYA_45620	COG0183	Belongs to the thiolase family
VYA_45630	COG1960	acyl-CoA dehydrogenase activity
VYA_45640	COG1960	acyl-CoA dehydrogenase activity
VYA_45670	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
VYA_45680	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
VYA_45700	COG0346	lactoylglutathione lyase activity
VYA_45780	COG0583	DNA-binding transcription factor activity
VYA_45790	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
VYA_45810	COG2272	Belongs to the type-B carboxylesterase lipase family
VYA_45840	COG2860	membrane
VYA_45870	COG0729	surface antigen
VYA_45880	COG3653	N-Acyl-D-aspartate D-glutamate deacylase
VYA_45900	COG3547	Transposase (IS116 IS110 IS902 family)
VYA_45980	COG2188	Transcriptional regulator