locus-tag	class	description
YPA_0001	COG0716	FMN binding
YPA_0002	COG1522	sequence-specific DNA binding
YPA_0011	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
YPA_0013	COG0477	Major facilitator Superfamily
YPA_0014	COG2186	Transcriptional regulator
YPA_0017	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
YPA_0018	COG2224	Isocitrate lyase
YPA_0020	COG1414	Transcriptional regulator
YPA_0025	COG0527	aspartate kinase activity
YPA_0028	COG3833	ABC-type maltose transport systems, permease component
YPA_0029	COG1175	transmembrane transport
YPA_0041	COG2801	Transposase and inactivated derivatives
YPA_0047	COG0195	Participates in both transcription termination and antitermination
YPA_0049	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
YPA_0051	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
YPA_0052	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
YPA_0054	COG1534	Rna-binding protein
YPA_0055	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
YPA_0056	COG2027	D-alanyl-D-alanine carboxypeptidase
YPA_0057	COG0745	RESPONSE REGULATOR receiver
YPA_0058	COG0642	Histidine kinase
YPA_0060	COG0697	spore germination
YPA_0063	COG0142	geranyltranstransferase activity
YPA_0065	COG3423	Transcriptional regulator
YPA_0069	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
YPA_0071	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
YPA_0072	COG2105	PFAM AIG2 family protein
YPA_0073	COG2911	Protein conserved in bacteria
YPA_0074	COG0729	surface antigen
YPA_0076	COG1253	flavin adenine dinucleotide binding
YPA_0078	COG3054	Bacterial protein of unknown function (YtfJ_HI0045)
YPA_0080	COG0737	Belongs to the 5'-nucleotidase family
YPA_0082	COG0545	Peptidyl-prolyl cis-trans isomerase
YPA_0083	COG3061	Opacity-associated protein A
YPA_0085	COG1943	Transposase
YPA_0087	COG0238	Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
YPA_0089	COG0360	Binds together with S18 to 16S ribosomal RNA
YPA_0091	COG1073	alpha beta
YPA_0097	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
YPA_0100	COG1629	transport
YPA_0105	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
YPA_0106	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
YPA_0106	COG0678	peroxiredoxin activity
YPA_0114	COG1879	ABC-type sugar transport system periplasmic component
YPA_0115	COG1129	ABC transporter
YPA_0116	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_0117	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_0119	COG3085	chromosome segregation
YPA_0122	COG3978	acetolactate synthase activity
YPA_0123	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
YPA_0131	COG0583	DNA-binding transcription factor activity
YPA_0138	COG3121	Chaperone
YPA_0141	COG3121	Chaperone
YPA_0143	COG3328	transposase activity
YPA_0145	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
YPA_0150	COG3118	belongs to the thioredoxin family
YPA_0151	COG1158	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template
YPA_0152	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
YPA_0153	COG3765	Modulates the polysaccharide chain length of enterobacterial common antigen (ECA)
YPA_0154	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
YPA_0155	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
YPA_0156	COG1088	dTDP-glucose 4,6-dehydratase activity
YPA_0157	COG1209	Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis
YPA_0158	COG0456	acetyltransferase
YPA_0159	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
YPA_0160	COG2244	polysaccharide biosynthetic process
YPA_0164	COG1113	amino acid transport
YPA_0168	COG1943	Transposase
YPA_0169	COG3071	HemY protein
YPA_0170	COG2959	enzyme of heme biosynthesis
YPA_0171	COG1587	Uroporphyrinogen-III synthase
YPA_0174	COG3072	Adenylate cyclase
YPA_0176	COG5567	small periplasmic lipoprotein
YPA_0178	COG3159	Protein conserved in bacteria
YPA_0179	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
YPA_0180	COG1011	Hydrolase
YPA_0181	COG0210	DNA helicase
YPA_0183	COG5441	Belongs to the UPF0261 family
YPA_0184	COG5564	TIM-barrel signal transduction protein
YPA_0185	COG0598	Magnesium transport protein CorA
YPA_0187	COG2050	protein possibly involved in aromatic compounds catabolism
YPA_0188	COG2829	1-acyl-2-lysophosphatidylserine acylhydrolase activity
YPA_0189	COG0514	ATP-dependent DNA helicase (RecQ)
YPA_0190	COG1280	lysine exporter protein (LysE YggA)
YPA_0191	COG1280	lysine exporter protein (LysE YggA)
YPA_0192	COG2267	carboxylic ester hydrolase activity
YPA_0193	COG0561	phosphatase activity
YPA_0195	COG0584	glycerophosphoryl diester phosphodiesterase
YPA_0196	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
YPA_0198	COG0247	lactate metabolic process
YPA_0200	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
YPA_0203	COG3714	YhhN family
YPA_0206	COG3776	membrane
YPA_0207	COG0742	ribosomal rna small subunit methyltransferase
YPA_0208	COG0552	protein localization to endoplasmic reticulum
YPA_0208	COG0552	protein localization to endoplasmic reticulum
YPA_0209	COG2884	Cell division ATP-binding protein ftsE
YPA_0210	COG2177	Part of the ABC transporter FtsEX involved in
YPA_0212	COG1943	Transposase
YPA_0214	COG0683	leucine binding
YPA_0217	COG0559	Belongs to the binding-protein-dependent transport system permease family
YPA_0218	COG4177	L-phenylalanine transmembrane transporter activity
YPA_0219	COG0411	ABC transporter
YPA_0220	COG0410	ABC transporter
YPA_0232	COG0584	glycerophosphoryl diester phosphodiesterase
YPA_0233	COG0679	Auxin Efflux Carrier
YPA_0235	COG0583	DNA-binding transcription factor activity
YPA_0237	COG0412	Dienelactone hydrolase
YPA_0238	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
YPA_0240	COG1966	Carbon starvation protein
YPA_0241	COG0586	Pfam SNARE associated Golgi protein
YPA_0242	COG1322	Protein conserved in bacteria
YPA_0246	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
YPA_0248	COG0805	protein transport
YPA_0254	COG1575	Belongs to the MenA family. Type 1 subfamily
YPA_0257	COG3087	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
YPA_0258	COG1609	Transcriptional regulator
YPA_0259	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
YPA_0261	COG4682	membrane
YPA_0263	COG0626	cystathionine gamma-synthase activity
YPA_0264	COG0626	cystathionine gamma-synthase activity
YPA_0265	COG0527	aspartate kinase activity
YPA_0265	COG0460	homoserine dehydrogenase
YPA_0267	COG2801	Transposase and inactivated derivatives
YPA_0269	COG2211	Major facilitator Superfamily
YPA_0279	COG2771	luxR family
YPA_0280	COG3916	Acyl-homoserine-lactone synthase
YPA_0300	COG1662	PFAM IS1 transposase
YPA_0304	COG1982	Orn Lys Arg decarboxylase major
YPA_0305	COG1879	ABC-type sugar transport system periplasmic component
YPA_0306	COG1129	ABC transporter
YPA_0307	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_0308	COG4774	siderophore transport
YPA_0312	COG1194	a g-specific adenine glycosylase
YPA_0314	COG3171	Protein conserved in bacteria
YPA_0315	COG2066	Belongs to the glutaminase family
YPA_0318	COG1073	alpha beta
YPA_0318	COG3064	Membrane
YPA_0318	COG2931	calcium- and calmodulin-responsive adenylate cyclase activity
YPA_0319	COG0635	Involved in the biosynthesis of porphyrin-containing compound
YPA_0320	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
YPA_0322	COG0762	integral membrane protein
YPA_0323	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
YPA_0324	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
YPA_0325	COG2805	Type II/IV secretion system protein
YPA_0327	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
YPA_0330	COG0189	ligase activity
YPA_0331	COG1385	rRNA (uridine-N3-)-methyltransferase activity
YPA_0333	COG2356	endonuclease I
YPA_0336	COG1166	arginine decarboxylase activity
YPA_0337	COG1943	Transposase
YPA_0339	COG0501	Belongs to the peptidase M48B family
YPA_0340	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
YPA_0341	COG1943	Transposase
YPA_0344	COG0191	fructose-bisphosphate aldolase activity
YPA_0352	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
YPA_0353	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
YPA_0354	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
YPA_0357	COG0006	proline dipeptidase activity
YPA_0358	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
YPA_0359	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
YPA_0366	COG5295	Hep Hag repeat protein
YPA_0368	COG1272	protein, Hemolysin III
YPA_0371	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
YPA_0373	COG0745	RESPONSE REGULATOR receiver
YPA_0374	COG2205	protein histidine kinase activity
YPA_0375	COG4452	Inner membrane protein CreD
YPA_0376	COG0716	FMN binding
YPA_0377	COG4974	Belongs to the 'phage' integrase family
YPA_0378	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
YPA_0379	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
YPA_0382	COG0582	viral genome integration into host DNA
YPA_0385	COG0582	viral genome integration into host DNA
YPA_0391	COG2944	sequence-specific DNA binding
YPA_0407	COG1695	Transcriptional regulator
YPA_0408	COG0791	NLP P60 protein
YPA_0410	COG1879	ABC-type sugar transport system periplasmic component
YPA_0411	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_0412	COG1129	ABC transporter
YPA_0414	COG2182	Extracellular solute-binding protein
YPA_0415	COG1175	transmembrane transport
YPA_0416	COG3833	ABC-type maltose transport systems, permease component
YPA_0417	COG3867	Arabinogalactan endo-beta-1,4-galactanase
YPA_0418	COG1874	Beta-galactosidase
YPA_0419	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
YPA_0419	COG1263	PTS System
YPA_0423	COG2271	Major facilitator Superfamily
YPA_0426	COG0191	fructose-bisphosphate aldolase activity
YPA_0428	COG3119	arylsulfatase activity
YPA_0429	COG0641	radical SAM
YPA_0431	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_0433	COG2893	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_0434	COG3716	PTS system mannose fructose sorbose family IID component
YPA_0435	COG3715	PTS system
YPA_0436	COG3444	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
YPA_0437	COG2222	sugar isomerase
YPA_0439	COG1349	DNA-binding transcription factor activity
YPA_0440	COG3119	arylsulfatase activity
YPA_0441	COG1943	Transposase
YPA_0444	COG1943	Transposase
YPA_0450	COG0288	reversible hydration of carbon dioxide
YPA_0458	COG2165	general secretion pathway protein
YPA_0467	COG0840	transmembrane signaling receptor activity
YPA_0470	COG0583	DNA-binding transcription factor activity
YPA_0471	COG2814	Major facilitator Superfamily
YPA_0472	COG0583	DNA-binding transcription factor activity
YPA_0473	COG0019	diaminopimelate decarboxylase activity
YPA_0474	COG1609	Transcriptional regulator
YPA_0479	COG0667	Aldo Keto reductase
YPA_0490	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
YPA_0492	COG1074	ATP-dependent DNA helicase activity
YPA_0493	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
YPA_0495	COG0860	N-Acetylmuramoyl-L-alanine amidase
YPA_0496	COG2821	murein-degrading enzyme. may play a role in recycling of muropeptides during cell elongation and or cell division
YPA_0497	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
YPA_0498	COG2166	iron-sulfur cluster assembly
YPA_0499	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
YPA_0500	COG0583	DNA-binding transcription factor activity
YPA_0501	COG2363	Small membrane protein
YPA_0507	COG1611	Belongs to the LOG family
YPA_0510	COG1943	Transposase
YPA_0511	COG3098	single-species biofilm formation
YPA_0512	COG0564	pseudouridine synthase activity
YPA_0517	COG0024	Methionine aminopeptidase
YPA_0521	COG1943	Transposase
YPA_0525	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
YPA_0526	COG0575	Belongs to the CDS family
YPA_0527	COG0750	zinc metalloprotease
YPA_0529	COG2825	PFAM Outer membrane chaperone Skp (OmpH)
YPA_0533	COG0763	Condensation of UDP-2,3-diacylglucosamine and 2,3- diacylglucosamine-1-phosphate to form lipid A disaccharide, a precursor of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
YPA_0535	COG0587	DNA-directed DNA polymerase activity
YPA_0537	COG0346	lactoylglutathione lyase activity
YPA_0538	COG0037	tRNA processing
YPA_0540	COG4568	rho-dependent transcription termination
YPA_0542	COG4681	YaeQ
YPA_0544	COG3015	lipoprotein NlpE involved in copper resistance
YPA_0546	COG1720	tRNA m6t6A37 methyltransferase activity
YPA_0548	COG1464	Belongs to the NlpA lipoprotein family
YPA_0549	COG2011	ABC-type metal ion transport system permease component
YPA_0551	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
YPA_0553	COG0656	L-ascorbic acid biosynthetic process
YPA_0556	COG1388	LysM domain
YPA_0556	COG0741	lytic transglycosylase activity
YPA_0558	COG2226	methyltransferase
YPA_0560	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
YPA_0561	COG1953	Uracil, thiamine, allantoin
YPA_0566	COG3657	addiction module killer protein
YPA_0577	COG0582	viral genome integration into host DNA
YPA_0578	COG1943	Transposase
YPA_0580	COG2867	negative regulation of translational initiation
YPA_0582	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
YPA_0583	COG0497	DNA recombination
YPA_0584	COG0061	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP
YPA_0587	COG2009	succinate dehydrogenase
YPA_0588	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
YPA_0589	COG1053	succinate dehydrogenase
YPA_0591	COG0567	Dehydrogenase, E1 component
YPA_0592	COG0508	dehydrogenase complex catalyzes the overall conversion of
YPA_0594	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
YPA_0595	COG1271	oxidase subunit
YPA_0596	COG1294	oxidase, subunit
YPA_0597	COG3790	cyd operon protein YbgE
YPA_0598	COG0824	Thioesterase
YPA_0599	COG0811	peptide transport
YPA_0600	COG0848	biopolymer transport protein
YPA_0601	COG3064	Membrane
YPA_0601	COG3064	Membrane
YPA_0603	COG2885	chlorophyll binding
YPA_0604	COG1729	Mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division
YPA_0607	COG1230	cation diffusion facilitator family transporter
YPA_0608	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
YPA_0611	COG1686	Belongs to the peptidase S11 family
YPA_0612	COG0814	amino acid
YPA_0613	COG1349	DNA-binding transcription factor activity
YPA_0614	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
YPA_0615	COG0671	phosphoesterase, PA-phosphatase related
YPA_0617	COG0569	domain protein
YPA_0617	COG2985	domain, Protein
YPA_0618	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
YPA_0621	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
YPA_0622	COG3842	ATPase activity
YPA_0623	COG1176	ABC-type spermidine putrescine transport system, permease component I
YPA_0624	COG1177	transmembrane transport
YPA_0627	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
YPA_0630	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
YPA_0631	COG1120	ATPase activity
YPA_0636	COG4160	amino acid transport
YPA_0637	COG4215	(ABC) transporter
YPA_0638	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
YPA_0639	COG1126	abc transporter atp-binding protein
YPA_0640	COG1605	Chorismate mutase
YPA_0643	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YPA_0644	COG0702	epimerase
YPA_0645	COG2008	Catalyzes the cleavage of L-allo-threonine and L- threonine to glycine and acetaldehyde
YPA_0647	COG0028	Belongs to the TPP enzyme family
YPA_0648	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
YPA_0650	COG2431	L-lysine efflux transmembrane transporter activity
YPA_0651	COG3593	DNA synthesis involved in DNA repair
YPA_0652	COG2990	Protein conserved in bacteria
YPA_0654	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
YPA_0656	COG1278	Cold shock
YPA_0658	COG0542	response to heat
YPA_0659	COG1943	Transposase
YPA_0660	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
YPA_0662	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
YPA_0664	COG0492	ferredoxin-NADP+ reductase activity
YPA_0666	COG1674	ftsk spoiiie
YPA_0666	COG3107	peptidoglycan biosynthetic process
YPA_0668	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
YPA_0670	COG2814	Major facilitator Superfamily
YPA_0671	COG2814	Major facilitator Superfamily
YPA_0672	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
YPA_0674	COG1882	Formate acetyltransferase
YPA_0675	COG2116	formate transmembrane transporter activity
YPA_0676	COG1944	ATP diphosphatase activity
YPA_0677	COG0252	asparaginase activity
YPA_0678	COG5295	Hep Hag repeat protein
YPA_0678	COG5295	Hep Hag repeat protein
YPA_0683	COG0539	negative regulation of cytoplasmic translation
YPA_0685	COG2333	competence protein COMEC
YPA_0685	COG0658	competence protein
YPA_0688	COG5383	Protein conserved in bacteria
YPA_0691	COG5383	Protein conserved in bacteria
YPA_0692	COG1278	Cold shock
YPA_0693	COG2835	tetraacyldisaccharide 4'-kinase activity
YPA_0695	COG3173	Aminoglycoside phosphotransferase
YPA_0696	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
YPA_0697	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
YPA_0698	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
YPA_0700	COG1943	Transposase
YPA_0701	COG2989	Protein conserved in bacteria
YPA_0702	COG3108	Peptidase M15
YPA_0703	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
YPA_0704	COG1448	Aminotransferase
YPA_0709	COG0308	aminopeptidase N
YPA_0712	COG0633	Ferredoxin
YPA_0712	COG3217	Mosc domain protein beta barrel domain protein
YPA_0714	COG0488	(ABC) transporter
YPA_0715	COG2995	paraquat-inducible protein a
YPA_0716	COG3008	intermembrane lipid transfer
YPA_0716	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
YPA_0717	COG3009	Protein conserved in bacteria
YPA_0718	COG1943	Transposase
YPA_0719	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
YPA_0722	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
YPA_0724	COG1067	ATP-dependent peptidase activity
YPA_0726	COG1943	Transposase
YPA_0727	COG2885	chlorophyll binding
YPA_0727	COG3637	Has lipid A 3-O-deacylase activity. Hydrolyzes the ester bond at the 3 position of lipid A, a bioactive component of lipopolysaccharide (LPS), thereby releasing the primary fatty acyl moiety
YPA_0729	COG3070	regulator of competence-specific genes
YPA_0730	COG1289	transmembrane transporter activity
YPA_0731	COG3304	Inner membrane component domain
YPA_0732	COG0210	DNA helicase
YPA_0734	COG3110	Uncharacterized protein conserved in bacteria (DUF2057)
YPA_0735	COG1832	CoA-binding protein
YPA_0739	COG2920	part of a sulfur-relay system
YPA_0745	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_0747	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
YPA_0748	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
YPA_0749	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_0750	COG3425	synthase
YPA_0752	COG1024	Enoyl-CoA hydratase
YPA_0753	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_0755	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
YPA_0756	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
YPA_0787	COG0488	(ABC) transporter
YPA_0789	COG3328	transposase activity
YPA_0791	COG0303	'Molybdopterin
YPA_0793	COG1136	(ABC) transporter
YPA_0798	COG0583	DNA-binding transcription factor activity
YPA_0799	COG0477	Major facilitator Superfamily
YPA_0801	COG2311	Membrane
YPA_0804	COG4211	Belongs to the binding-protein-dependent transport system permease family
YPA_0805	COG2949	membrane
YPA_0808	COG1346	cytolysis
YPA_0810	COG2814	Major facilitator Superfamily
YPA_0815	COG1943	Transposase
YPA_0817	COG0489	protein tyrosine kinase activity
YPA_0820	COG2982	Protein involved in outer membrane biogenesis
YPA_0821	COG1253	flavin adenine dinucleotide binding
YPA_0822	COG4114	ferric iron reductase
YPA_0823	COG0076	glutamate decarboxylase activity
YPA_0824	COG3486	L-lysine 6-monooxygenase (NADPH) activity
YPA_0827	COG1120	ATPase activity
YPA_0828	COG4779	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
YPA_0829	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
YPA_0830	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
YPA_0832	COG4264	IucA IucC family
YPA_0834	COG1210	Utp--glucose-1-phosphate uridylyltransferase
YPA_0835	COG1210	Utp--glucose-1-phosphate uridylyltransferase
YPA_0837	COG0140	phosphoribosyl-ATP diphosphatase activity
YPA_0837	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
YPA_0840	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
YPA_0842	COG0131	Imidazoleglycerol-phosphate dehydratase
YPA_0842	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
YPA_0844	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
YPA_0846	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YPA_0848	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_0849	COG1129	ABC transporter
YPA_0850	COG1129	ABC transporter
YPA_0851	COG0371	Dehydrogenase
YPA_0852	COG0531	amino acid
YPA_0853	COG2925	Exonuclease
YPA_0856	COG3328	transposase activity
YPA_0857	COG1470	cell adhesion involved in biofilm formation
YPA_0857	COG1388	LysM domain
YPA_0859	COG2271	Major facilitator Superfamily
YPA_0860	COG3011	Protein conserved in bacteria
YPA_0861	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_0863	COG4948	Mandelate Racemase Muconate Lactonizing
YPA_0867	COG0534	Mate efflux family protein
YPA_0871	COG3122	Protein conserved in bacteria
YPA_0875	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
YPA_0879	COG2223	nitrite transmembrane transporter activity
YPA_0880	COG3328	transposase activity
YPA_0882	COG0513	Belongs to the DEAD box helicase family
YPA_0883	COG1943	Transposase
YPA_0885	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
YPA_0887	COG1686	Belongs to the peptidase S11 family
YPA_0888	COG0277	FAD linked oxidase domain protein
YPA_0890	COG1403	HNH endonuclease
YPA_0893	COG2261	transglycosylase associated protein
YPA_0895	COG3221	ABC-type phosphate phosphonate transport system periplasmic component
YPA_0898	COG4807	Protein conserved in bacteria
YPA_0902	COG1122	ATPase activity
YPA_0903	COG0410	ABC transporter
YPA_0906	COG2897	thiosulfate sulfurtransferase activity
YPA_0907	COG1732	Glycine betaine
YPA_0908	COG1732	Glycine betaine
YPA_0909	COG1174	glycine betaine transport
YPA_0910	COG1125	glycine betaine transport
YPA_0911	COG1174	glycine betaine transport
YPA_0912	COG0531	amino acid
YPA_0913	COG1982	Orn Lys Arg decarboxylase major
YPA_0915	COG0697	spore germination
YPA_0923	COG0814	amino acid
YPA_0926	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
YPA_0931	COG2205	protein histidine kinase activity
YPA_0931	COG0784	Response regulator, receiver
YPA_0933	COG2198	Histidine kinase
YPA_0933	COG0642	Histidine kinase
YPA_0934	COG2198	Histidine kinase
YPA_0934	COG0642	Histidine kinase
YPA_0935	COG2223	nitrite transmembrane transporter activity
YPA_0936	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
YPA_0937	COG1943	Transposase
YPA_0938	COG1943	Transposase
YPA_0939	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
YPA_0949	COG3395	kinase activity
YPA_0950	COG0235	Class ii aldolase
YPA_0951	COG1349	DNA-binding transcription factor activity
YPA_0952	COG3622	Belongs to the hyi family
YPA_0956	COG4386	tail sheath protein
YPA_0964	COG3299	homolog of phage Mu protein gp47
YPA_0968	COG1737	Transcriptional regulator
YPA_0969	COG2723	6-phospho-beta-galactosidase activity
YPA_0973	COG3157	Type VI secretion system effector, Hcp
YPA_0976	COG3157	Type VI secretion system effector, Hcp
YPA_0978	COG3083	sulfuric ester hydrolase activity
YPA_0979	COG3082	Protein of unknown function (DUF1414)
YPA_0981	COG1943	Transposase
YPA_0983	COG1061	Type III restriction enzyme res subunit
YPA_0984	COG1187	pseudouridine synthase activity
YPA_0985	COG2814	Major facilitator Superfamily
YPA_0988	COG4172	Belongs to the ABC transporter superfamily
YPA_0989	COG4239	(ABC) transporter, permease
YPA_0990	COG4174	ABC transporter (Permease)
YPA_0991	COG4166	transmembrane transport
YPA_0992	COG2200	EAL domain
YPA_0993	COG0791	NLP P60 protein
YPA_0994	COG0671	phosphoesterase, PA-phosphatase related
YPA_0995	COG0523	cobalamin synthesis protein
YPA_0997	COG2186	Transcriptional regulator
YPA_0998	COG0246	Mannitol dehydrogenase
YPA_1003	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_1006	COG2801	Transposase and inactivated derivatives
YPA_1010	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
YPA_1012	COG1129	ABC transporter
YPA_1013	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_1014	COG0494	nUDIX hydrolase
YPA_1016	COG1105	Belongs to the carbohydrate kinase PfkB family
YPA_1017	COG3925	protein-phosphocysteine-D-fructose-phosphotransferase system transporter activity
YPA_1017	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
YPA_1017	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
YPA_1018	COG3710	Transcriptional regulator
YPA_1021	COG3121	Chaperone
YPA_1022	COG3188	usher protein
YPA_1024	COG2855	membrane
YPA_1025	COG0583	DNA-binding transcription factor activity
YPA_1026	COG0833	amino acid
YPA_1028	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
YPA_1030	COG4771	TonB-dependent receptor
YPA_1031	COG0625	glutathione transferase activity
YPA_1036	COG2011	ABC-type metal ion transport system permease component
YPA_1037	COG1686	Belongs to the peptidase S11 family
YPA_1040	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
YPA_1043	COG2017	converts alpha-aldose to the beta-anomer
YPA_1046	COG1085	galactose-1-phosphate uridylyltransferase
YPA_1047	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
YPA_1049	COG1119	ATPase activity
YPA_1050	COG2005	Transcriptional regulator
YPA_1050	COG3585	molybdate ion transport
YPA_1052	COG0725	ABC transporter, periplasmic molybdate-binding protein
YPA_1053	COG4149	molybdate abc transporter
YPA_1055	COG0561	phosphatase activity
YPA_1060	COG2226	methyltransferase
YPA_1061	COG0132	Catalyzes a mechanistically unusual reaction, the ATP- dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring
YPA_1064	COG4628	conserved protein (DUF2132)
YPA_1065	COG0391	Required for morphogenesis under gluconeogenic growth conditions
YPA_1066	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
YPA_1068	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
YPA_1069	COG0314	molybdopterin synthase activity
YPA_1070	COG0670	Belongs to the BI1 family
YPA_1071	COG0670	Belongs to the BI1 family
YPA_1072	COG1943	Transposase
YPA_1076	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
YPA_1077	COG0583	DNA-binding transcription factor activity
YPA_1079	COG0005	The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate
YPA_1080	COG2211	Major facilitator Superfamily
YPA_1081	COG1943	Transposase
YPA_1082	COG2211	Major facilitator Superfamily
YPA_1086	COG1902	pentaerythritol trinitrate reductase activity
YPA_1090	COG0842	Transport permease protein
YPA_1091	COG0842	Transport permease protein
YPA_1092	COG1131	(ABC) transporter
YPA_1094	COG1309	transcriptional regulator
YPA_1095	COG0513	Belongs to the DEAD box helicase family
YPA_1101	COG3328	transposase activity
YPA_1109	COG1132	(ABC) transporter
YPA_1111	COG2207	Transcriptional regulator
YPA_1117	COG1113	amino acid transport
YPA_1120	COG1278	Cold shock
YPA_1122	COG2226	methyltransferase
YPA_1124	COG5002	protein histidine kinase activity
YPA_1124	COG3447	MASE1 domain protein
YPA_1124	COG5001	Diguanylate cyclase
YPA_1128	COG3716	PTS system mannose fructose sorbose family IID component
YPA_1129	COG3715	PTS system
YPA_1130	COG3444	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
YPA_1130	COG2893	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_1131	COG1253	flavin adenine dinucleotide binding
YPA_1132	COG1846	Transcriptional regulator
YPA_1135	COG1012	belongs to the aldehyde dehydrogenase family
YPA_1136	COG3384	dioxygenase
YPA_1138	COG3971	2-oxopent-4-enoate hydratase activity
YPA_1141	COG2368	4-hydroxyphenylacetate
YPA_1142	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
YPA_1143	COG1760	l-serine dehydratase
YPA_1148	COG0513	Belongs to the DEAD box helicase family
YPA_1149	COG3141	response to X-ray
YPA_1152	COG1770	oligopeptidase
YPA_1158	COG1528	Iron-storage protein
YPA_1159	COG2372	response to copper ion
YPA_1164	COG1377	Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
YPA_1165	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
YPA_1166	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
YPA_1169	COG1943	Transposase
YPA_1171	COG3418	PFAM FlgN family protein
YPA_1172	COG2747	anti-sigma28 factor FlgM
YPA_1174	COG1815	bacterial-type flagellum-dependent cell motility
YPA_1175	COG1558	bacterial-type flagellum-dependent cell motility
YPA_1176	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
YPA_1177	COG1749	Flagellar hook protein flgE
YPA_1179	COG4786	Flagellar basal body rod
YPA_1183	COG1256	bacterial-type flagellum assembly
YPA_1185	COG2390	Transcriptional regulator
YPA_1186	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_1186	COG3347	Dehydrogenase
YPA_1187	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_1189	COG1129	ABC transporter
YPA_1190	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_1191	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
YPA_1195	COG1987	bacterial-type flagellum assembly
YPA_1200	COG1580	Controls the rotational direction of flagella during chemotaxis
YPA_1202	COG2882	bacterial-type flagellum organization
YPA_1203	COG1157	protein secretion by the type III secretion system
YPA_1205	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
YPA_1207	COG1677	Flagellar hook-basal body complex protein FliE
YPA_1210	COG0122	3-methyladenine DNA glycosylase 8-oxoguanine DNA glycosylase
YPA_1211	COG2206	PFAM metal-dependent phosphohydrolase, HD sub domain
YPA_1212	COG2114	Pfam Adenylate and Guanylate cyclase catalytic domain
YPA_1219	COG1191	sigma factor activity
YPA_1221	COG2515	1-aminocyclopropane-1-carboxylate deaminase
YPA_1229	COG4230	.,Oxidizes proline to glutamate for use as a carbon and nitrogen source
YPA_1229	COG3905	.,Oxidizes proline to glutamate for use as a carbon and nitrogen source
YPA_1229	COG0506	proline dehydrogenase activity
YPA_1234	COG2837	iron assimilation
YPA_1235	COG2837	iron assimilation
YPA_1238	COG1113	amino acid transport
YPA_1241	COG3136	membrane protein required for alginate biosynthesis
YPA_1243	COG2197	response regulator
YPA_1260	COG3328	transposase activity
YPA_1261	COG3328	transposase activity
YPA_1268	COG0673	inositol 2-dehydrogenase activity
YPA_1270	COG1175	transmembrane transport
YPA_1271	COG0395	ABC-type sugar transport system, permease component
YPA_1284	COG4771	TonB-dependent receptor
YPA_1285	COG1021	2,3-dihydroxybenzoate-AMP ligase
YPA_1289	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
YPA_1289	COG3433	isochorismatase activity
YPA_1289	COG2226	methyltransferase
YPA_1292	COG1132	(ABC) transporter
YPA_1293	COG2814	Major facilitator Superfamily
YPA_1294	COG1169	isochorismate synthase
YPA_1295	COG0582	viral genome integration into host DNA
YPA_1296	COG3121	Chaperone
YPA_1298	COG3188	usher protein
YPA_1302	COG2205	protein histidine kinase activity
YPA_1302	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
YPA_1304	COG0427	acetyl-CoA hydrolase
YPA_1305	COG2030	dehydratase
YPA_1317	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
YPA_1318	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
YPA_1320	COG1349	DNA-binding transcription factor activity
YPA_1322	COG2066	Belongs to the glutaminase family
YPA_1324	COG0672	)-iron permease
YPA_1327	COG1136	(ABC) transporter
YPA_1327	COG0577	efflux transmembrane transporter activity
YPA_1329	COG0577	efflux transmembrane transporter activity
YPA_1329	COG1136	(ABC) transporter
YPA_1333	COG0006	proline dipeptidase activity
YPA_1334	COG0457	Tetratricopeptide repeat
YPA_1335	COG1649	PFAM Uncharacterised BCR, COG1649
YPA_1335	COG0726	polysaccharide deacetylase
YPA_1336	COG1215	transferase activity, transferring glycosyl groups
YPA_1337	COG3658	cytochrome
YPA_1340	COG1702	phosphate starvation-inducible protein PhoH
YPA_1341	COG0387	Pfam Sodium calcium exchanger
YPA_1342	COG3850	Histidine kinase
YPA_1343	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
YPA_1352	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
YPA_1356	COG0402	S-adenosylhomocysteine deaminase activity
YPA_1359	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
YPA_1360	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
YPA_1361	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YPA_1370	COG3328	transposase activity
YPA_1374	COG0500	methyltransferase
YPA_1382	COG5002	protein histidine kinase activity
YPA_1393	COG0012	GTP binding
YPA_1396	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)
YPA_1402	COG2890	protein-(glutamine-N5) methyltransferase activity
YPA_1403	COG3094	Invasion gene expression up-regulator, SirB
YPA_1404	COG2912	Transglutaminase-like superfamily
YPA_1406	COG0659	secondary active sulfate transmembrane transporter activity
YPA_1409	COG0659	secondary active sulfate transmembrane transporter activity
YPA_1412	COG3833	ABC-type maltose transport systems, permease component
YPA_1413	COG1176	ABC-type spermidine putrescine transport system, permease component I
YPA_1415	COG1943	Transposase
YPA_1416	COG3842	ATPase activity
YPA_1417	COG0584	glycerophosphoryl diester phosphodiesterase
YPA_1418	COG1940	carbohydrate kinase activity
YPA_1420	COG3381	protein complex oligomerization
YPA_1423	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
YPA_1425	COG0728	peptidoglycan biosynthetic process
YPA_1429	COG3102	Protein conserved in bacteria
YPA_1433	COG3788	relative of glutathione S-transferase, MAPEG superfamily
YPA_1434	COG1801	Protein of unknown function DUF72
YPA_1436	COG0494	nUDIX hydrolase
YPA_1439	COG1943	Transposase
YPA_1442	COG1108	ABC-type Mn2 Zn2 transport systems permease components
YPA_1444	COG4531	ABC-type Zn2 transport system, periplasmic component surface adhesin
YPA_1445	COG0739	heme binding
YPA_1446	COG1560	Kdo2-lipid A biosynthetic process
YPA_1447	COG0469	pyruvate kinase activity
YPA_1448	COG1737	Transcriptional regulator
YPA_1449	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
YPA_1450	COG0800	Aldolase
YPA_1453	COG0251	oxidation-reduction process
YPA_1454	COG1199	ATP-dependent helicase activity
YPA_1456	COG3065	identical protein binding
YPA_1457	COG0318	PFAM AMP-dependent synthetase and ligase
YPA_1458	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
YPA_1459	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
YPA_1460	COG2894	cell division
YPA_1463	COG2951	lytic endotransglycosylase activity
YPA_1464	COG0179	Fumarylacetoacetate (FAA) hydrolase
YPA_1466	COG0582	viral genome integration into host DNA
YPA_1482	COG1943	Transposase
YPA_1495	COG3328	transposase activity
YPA_1498	COG1104	cysteine desulfurase activity
YPA_1504	COG2719	SpoVR family
YPA_1506	COG2814	Major facilitator Superfamily
YPA_1508	COG0583	DNA-binding transcription factor activity
YPA_1511	COG2766	serine protein kinase
YPA_1512	COG3713	MltA-interacting MipA family protein
YPA_1516	COG3139	Protein of unknown function (DUF1315)
YPA_1517	COG1335	isochorismatase
YPA_1518	COG0252	asparaginase activity
YPA_1519	COG0616	signal peptide processing
YPA_1520	COG0778	Nitroreductase
YPA_1521	COG0709	Synthesizes selenophosphate from selenide and ATP
YPA_1522	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
YPA_1524	COG0494	nUDIX hydrolase
YPA_1525	COG0708	Exodeoxyribonuclease III
YPA_1526	COG0583	DNA-binding transcription factor activity
YPA_1528	COG3328	transposase activity
YPA_1529	COG0788	formyltetrahydrofolate deformylase activity
YPA_1531	COG0745	RESPONSE REGULATOR receiver
YPA_1534	COG1435	thymidine kinase activity
YPA_1537	COG1454	alcohol dehydrogenase
YPA_1537	COG1012	belongs to the aldehyde dehydrogenase family
YPA_1538	COG2095	MarC family integral membrane protein
YPA_1540	COG0601	transmembrane transport
YPA_1541	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
YPA_1542	COG0444	Belongs to the ABC transporter superfamily
YPA_1543	COG4608	Belongs to the ABC transporter superfamily
YPA_1551	COG2350	Protein conserved in bacteria
YPA_1552	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
YPA_1553	COG3328	transposase activity
YPA_1554	COG1607	acyl-coa hydrolase
YPA_1560	COG3047	cAMP biosynthetic process
YPA_1565	COG0134	indole-3-glycerol-phosphate synthase activity
YPA_1565	COG0135	phosphoribosylanthranilate isomerase activity
YPA_1567	COG0512	Glutamine amidotransferase of anthranilate synthase
YPA_1570	COG0009	L-threonylcarbamoyladenylate synthase
YPA_1571	COG1187	pseudouridine synthase activity
YPA_1573	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_1574	COG0616	signal peptide processing
YPA_1577	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
YPA_1578	COG0583	DNA-binding transcription factor activity
YPA_1580	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
YPA_1581	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
YPA_1583	COG0671	phosphoesterase, PA-phosphatase related
YPA_1584	COG3771	Involved in the assembly of lipopolysaccharide (LPS)
YPA_1585	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
YPA_1588	COG0023	Translation Initiation Factor
YPA_1592	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
YPA_1593	COG2879	small protein
YPA_1594	COG1966	Carbon starvation protein
YPA_1596	COG2271	Major facilitator Superfamily
YPA_1597	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YPA_1598	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
YPA_1600	COG4659	FMN binding
YPA_1601	COG4658	electron transport chain
YPA_1602	COG2207	Transcriptional regulator
YPA_1602	COG3708	Transcriptional regulator
YPA_1609	COG2274	protein secretion by the type I secretion system
YPA_1611	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
YPA_1612	COG2274	protein secretion by the type I secretion system
YPA_1615	COG1879	ABC-type sugar transport system periplasmic component
YPA_1617	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_1619	COG0673	inositol 2-dehydrogenase activity
YPA_1620	COG0385	Bile acid
YPA_1622	COG5339	Protein conserved in bacteria
YPA_1624	COG0114	fumarate hydratase activity
YPA_1626	COG2814	Major facilitator Superfamily
YPA_1627	COG0583	DNA-binding transcription factor activity
YPA_1628	COG1940	carbohydrate kinase activity
YPA_1629	COG0132	Catalyzes a mechanistically unusual reaction, the ATP- dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring
YPA_1630	COG1609	Transcriptional regulator
YPA_1635	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
YPA_1636	COG1116	anion transmembrane transporter activity
YPA_1637	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
YPA_1642	COG0028	Belongs to the TPP enzyme family
YPA_1643	COG0440	acetolactate synthase activity
YPA_1644	COG1011	Hydrolase
YPA_1648	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
YPA_1649	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
YPA_1650	COG0589	response to stress
YPA_1651	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
YPA_1652	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
YPA_1654	COG0531	amino acid
YPA_1656	COG0745	RESPONSE REGULATOR receiver
YPA_1657	COG2205	protein histidine kinase activity
YPA_1658	COG2317	Broad specificity carboxypetidase that releases amino acids sequentially from the C-terminus, including neutral, aromatic, polar and basic residues
YPA_1659	COG1943	Transposase
YPA_1664	COG3038	cytochrome b561
YPA_1666	COG3591	Belongs to the peptidase S1B family
YPA_1668	COG1643	Atp-dependent helicase
YPA_1671	COG1643	Atp-dependent helicase
YPA_1673	COG2390	Transcriptional regulator
YPA_1674	COG0246	Mannitol dehydrogenase
YPA_1675	COG3784	Protein of unknown function (DUF1318)
YPA_1677	COG2911	Protein conserved in bacteria
YPA_1678	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
YPA_1679	COG3187	Heat shock protein
YPA_1680	COG3042	response to heat
YPA_1681	COG1285	pathogenesis
YPA_1683	COG0674	pyruvate-flavodoxin oxidoreductase activity
YPA_1683	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
YPA_1683	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
YPA_1683	COG1013	pyruvate-flavodoxin oxidoreductase activity
YPA_1685	COG2755	lipolytic protein G-D-S-L family
YPA_1685	COG0657	acetylesterase activity
YPA_1688	COG4166	transmembrane transport
YPA_1689	COG2866	Carboxypeptidase
YPA_1690	COG4948	Mandelate Racemase Muconate Lactonizing
YPA_1691	COG2077	Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides
YPA_1692	COG1943	Transposase
YPA_1697	COG3106	COG3106 Predicted ATPase
YPA_1699	COG1983	PspC domain protein
YPA_1701	COG1842	Phage shock protein A
YPA_1702	COG1221	Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain
YPA_1703	COG1943	Transposase
YPA_1704	COG4166	transmembrane transport
YPA_1705	COG4168	peptide transport system, permease
YPA_1706	COG4171	peptide transport system, permease
YPA_1708	COG4172	Belongs to the ABC transporter superfamily
YPA_1709	COG2128	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
YPA_1709	COG4950	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
YPA_1710	COG3104	oligopeptide transport
YPA_1713	COG0625	glutathione transferase activity
YPA_1717	COG3895	Periplasmic Protein
YPA_1719	COG3133	Outer membrane lipoprotein
YPA_1721	COG4989	oxidoreductase activity
YPA_1722	COG3313	Fe-S protein
YPA_1723	COG2194	sulfuric ester hydrolase activity
YPA_1724	COG1309	transcriptional regulator
YPA_1725	COG1902	pentaerythritol trinitrate reductase activity
YPA_1727	COG0346	lactoylglutathione lyase activity
YPA_1728	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
YPA_1729	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
YPA_1730	COG0791	NLP P60 protein
YPA_1731	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
YPA_1733	COG0583	DNA-binding transcription factor activity
YPA_1734	COG2814	Major facilitator Superfamily
YPA_1735	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
YPA_1736	COG0307	riboflavin synthase, alpha
YPA_1739	COG4238	major outer membrane lipoprotein
YPA_1740	COG1943	Transposase
YPA_1743	COG1388	LysM domain
YPA_1743	COG1376	ErfK ybiS ycfS ynhG family protein
YPA_1746	COG0719	Fe-S assembly protein
YPA_1747	COG0396	ATPase activity
YPA_1748	COG0719	Fe-S assembly protein
YPA_1749	COG0316	Belongs to the HesB IscA family
YPA_1750	COG2050	protein possibly involved in aromatic compounds catabolism
YPA_1751	COG0247	lactate metabolic process
YPA_1751	COG0277	FAD linked oxidase domain protein
YPA_1752	COG0628	permease
YPA_1753	COG0574	Belongs to the PEP-utilizing enzyme family
YPA_1753	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)
YPA_1759	COG0791	NLP P60 protein
YPA_1767	COG4138	Part of the ABC transporter complex BtuCDF involved in vitamin B12 import. Responsible for energy coupling to the transport system
YPA_1768	COG0386	Belongs to the glutathione peroxidase family
YPA_1771	COG0776	regulation of translation
YPA_1772	COG0072	phenylalanine-tRNA ligase activity
YPA_1772	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
YPA_1779	COG4249	Peptidase C14 caspase catalytic subunit p20
YPA_1783	COG0803	Belongs to the bacterial solute-binding protein 9 family
YPA_1784	COG1121	(ABC) transporter
YPA_1785	COG1108	ABC-type Mn2 Zn2 transport systems permease components
YPA_1786	COG1108	ABC-type Mn2 Zn2 transport systems permease components
YPA_1790	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
YPA_1791	COG3328	transposase activity
YPA_1792	COG1917	Cupin 2, conserved barrel domain protein
YPA_1794	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_1799	COG1175	transmembrane transport
YPA_1800	COG0395	ABC-type sugar transport system, permease component
YPA_1801	COG3842	ATPase activity
YPA_1802	COG1653	transport
YPA_1803	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
YPA_1804	COG1988	membrane-bound metal-dependent
YPA_1806	COG3023	N-Acetylmuramoyl-L-alanine amidase
YPA_1808	COG0823	Involved in the tonB-independent uptake of proteins
YPA_1809	COG2814	Major facilitator Superfamily
YPA_1810	COG3121	Chaperone
YPA_1813	COG3121	Chaperone
YPA_1814	COG3539	Fimbrial protein
YPA_1816	COG0793	Belongs to the peptidase S41A family
YPA_1818	COG1956	GAF domain-containing protein
YPA_1819	COG2995	paraquat-inducible protein a
YPA_1820	COG3008	intermembrane lipid transfer
YPA_1824	COG3121	Chaperone
YPA_1835	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
YPA_1837	COG5295	Hep Hag repeat protein
YPA_1839	COG3023	N-Acetylmuramoyl-L-alanine amidase
YPA_1841	COG3143	Plays an important role in bacterial chemotaxis signal transduction pathway by accelerating the dephosphorylation of phosphorylated CheY (CheY-P)
YPA_1842	COG0745	RESPONSE REGULATOR receiver
YPA_1844	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
YPA_1845	COG0840	transmembrane signaling receptor activity
YPA_1846	COG0840	transmembrane signaling receptor activity
YPA_1850	COG2964	Protein conserved in bacteria
YPA_1852	COG0251	oxidation-reduction process
YPA_1853	COG2271	Major facilitator Superfamily
YPA_1854	COG0835	chemotaxis
YPA_1855	COG0643	Histidine kinase
YPA_1855	COG2198	Histidine kinase
YPA_1856	COG1360	Flagellar Motor Protein
YPA_1861	COG1285	pathogenesis
YPA_1862	COG0840	transmembrane signaling receptor activity
YPA_1863	COG0840	transmembrane signaling receptor activity
YPA_1865	COG1278	Cold shock
YPA_1869	COG3321	synthase
YPA_1869	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_1869	COG0604	alcohol dehydrogenase
YPA_1872	COG1522	sequence-specific DNA binding
YPA_1878	COG1733	regulation of RNA biosynthetic process
YPA_1879	COG0702	epimerase
YPA_1880	COG0840	transmembrane signaling receptor activity
YPA_1883	COG0538	isocitrate dehydrogenase activity
YPA_1884	COG1187	pseudouridine synthase activity
YPA_1888	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
YPA_1890	COG0745	RESPONSE REGULATOR receiver
YPA_1892	COG2850	peptidyl-arginine hydroxylation
YPA_1894	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
YPA_1897	COG4591	ABC-type transport system involved in lipoprotein release permease component
YPA_1899	COG4591	ABC-type transport system involved in lipoprotein release permease component
YPA_1900	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
YPA_1901	COG3134	Outer membrane lipoprotein
YPA_1902	COG3328	transposase activity
YPA_1905	COG1252	NADH dehydrogenase
YPA_1907	COG1472	Belongs to the glycosyl hydrolase 3 family
YPA_1910	COG5633	Lipoprotein
YPA_1911	COG0537	adenosine 5'-monophosphoramidase activity
YPA_1912	COG0169	Involved in the biosynthesis of the chorismate, which leads to the biosynthesis of aromatic amino acids. Catalyzes the reversible NADPH linked reduction of 3-dehydroshikimate (DHSA) to yield shikimate (SA)
YPA_1913	COG1943	Transposase
YPA_1916	COG1943	Transposase
YPA_1917	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
YPA_1917	COG1263	PTS System
YPA_1918	COG0084	hydrolase, TatD family'
YPA_1919	COG0470	DNA polymerase III
YPA_1921	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
YPA_1922	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
YPA_1923	COG1943	Transposase
YPA_1924	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
YPA_1926	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_1930	COG0333	Belongs to the bacterial ribosomal protein bL32 family
YPA_1931	COG1399	metal-binding, possibly nucleic acid-binding protein
YPA_1933	COG1943	Transposase
YPA_1934	COG0564	pseudouridine synthase activity
YPA_1935	COG1530	ribonuclease E activity
YPA_1937	COG3328	transposase activity
YPA_1939	COG1359	(4S)-4-hydroxy-5-phosphonooxypentane-2,3-dione isomerase activity
YPA_1943	COG3328	transposase activity
YPA_1944	COG3328	transposase activity
YPA_1946	COG3328	transposase activity
YPA_1947	COG2197	response regulator
YPA_1948	COG0628	permease
YPA_1954	COG3916	Acyl-homoserine-lactone synthase
YPA_1955	COG2771	luxR family
YPA_1956	COG0583	DNA-binding transcription factor activity
YPA_1957	COG0477	Major facilitator Superfamily
YPA_1959	COG0667	Aldo Keto reductase
YPA_1964	COG1203	CRISPR-associated helicase, Cas3
YPA_1965	COG1518	maintenance of DNA repeat elements
YPA_1966	COG0668	transmembrane transport
YPA_1970	COG2152	Converts 4-O-beta-D-mannopyranosyl-D-glucopyranose (Man- Glc) to mannose 1-phosphate (Man1P) and glucose
YPA_1971	COG0395	ABC-type sugar transport system, permease component
YPA_1974	COG1609	Transcriptional regulator
YPA_1976	COG3842	ATPase activity
YPA_1979	COG3210	domain, Protein
YPA_1983	COG3210	domain, Protein
YPA_1986	COG3210	domain, Protein
YPA_1987	COG2831	hemolysin activation secretion protein
YPA_1988	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
YPA_1989	COG4638	Rieske (2fe-2S)
YPA_1990	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
YPA_1991	COG0473	3-isopropylmalate dehydrogenase activity
YPA_1992	COG0583	DNA-binding transcription factor activity
YPA_1993	COG1609	Transcriptional regulator
YPA_1994	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_1995	COG1129	ABC transporter
YPA_1996	COG1879	ABC-type sugar transport system periplasmic component
YPA_1997	COG1063	alcohol dehydrogenase
YPA_2004	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
YPA_2005	COG0765	amino acid transport
YPA_2006	COG1126	abc transporter atp-binding protein
YPA_2014	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
YPA_2017	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
YPA_2020	COG1169	isochorismate synthase
YPA_2022	COG4575	ribosome binding
YPA_2025	COG0129	dihydroxy-acid dehydratase activity
YPA_2028	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
YPA_2029	COG1609	Transcriptional regulator
YPA_2031	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_2032	COG3265	gluconokinase activity
YPA_2033	COG2731	YhcH YjgK YiaL family protein
YPA_2036	COG1008	NDH-1 shuttles electrons from NAD(P)H, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be plastoquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
YPA_2037	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
YPA_2039	COG0839	Belongs to the complex I subunit 6 family
YPA_2042	COG1034	ATP synthesis coupled electron transport
YPA_2044	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
YPA_2046	COG0377	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
YPA_2048	COG0583	DNA-binding transcription factor activity
YPA_2049	COG0436	Aminotransferase
YPA_2051	COG0490	domain, Protein
YPA_2051	COG0471	metal ion transport
YPA_2052	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
YPA_2056	COG0280	phosphate acetyltransferase
YPA_2056	COG0857	belongs to the CobB CobQ family
YPA_2057	COG1609	Transcriptional regulator
YPA_2060	COG3037	sugar-specific permease SgaT UlaA
YPA_2061	COG1443	Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)
YPA_2062	COG0622	Phosphoesterase
YPA_2064	COG1090	epimerase
YPA_2065	COG4598	ABC transporter
YPA_2066	COG4160	amino acid transport
YPA_2067	COG4215	(ABC) transporter
YPA_2068	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
YPA_2071	COG0163	prenyltransferase activity
YPA_2072	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
YPA_2073	COG1286	toxin biosynthetic process
YPA_2074	COG3147	Non-essential cell division protein that could be required for efficient cell constriction
YPA_2075	COG0285	dihydrofolate synthase activity
YPA_2077	COG0586	Pfam SNARE associated Golgi protein
YPA_2079	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
YPA_2082	COG0697	spore germination
YPA_2085	COG1794	racemase activity, acting on amino acids and derivatives
YPA_2086	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
YPA_2089	COG3101	peptidyl-lysine hydroxylation
YPA_2090	COG0730	response to heat
YPA_2093	COG2890	protein-(glutamine-N5) methyltransferase activity
YPA_2096	COG2062	phosphohistidine phosphatase, SixA
YPA_2099	COG3691	Protein conserved in bacteria
YPA_2102	COG3088	subunit of a heme lyase
YPA_2102	COG4235	cytochrome complex assembly
YPA_2103	COG3088	subunit of a heme lyase
YPA_2103	COG4235	cytochrome complex assembly
YPA_2104	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
YPA_2105	COG1138	Cytochrome C-type biogenesis protein
YPA_2107	COG3114	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
YPA_2108	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
YPA_2109	COG2386	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
YPA_2112	COG1704	LemA family
YPA_2114	COG2824	Alkylphosphonate utilization operon protein PhnA
YPA_2120	COG3501	Rhs element vgr protein
YPA_2132	COG3188	usher protein
YPA_2133	COG3328	transposase activity
YPA_2134	COG3188	usher protein
YPA_2135	COG3121	Chaperone
YPA_2147	COG2951	lytic endotransglycosylase activity
YPA_2154	COG0243	molybdopterin cofactor binding
YPA_2155	COG0437	4 iron, 4 sulfur cluster binding
YPA_2156	COG3302	dmso reductase anchor subunit
YPA_2157	COG3381	protein complex oligomerization
YPA_2163	COG3038	cytochrome b561
YPA_2164	COG0436	Aminotransferase
YPA_2169	COG0667	Aldo Keto reductase
YPA_2172	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
YPA_2174	COG1943	Transposase
YPA_2177	COG3530	Putative quorum-sensing-regulated virulence factor
YPA_2181	COG2981	High affinity, high specificity proton-dependent sulfate transporter, which mediates sulfate uptake. Provides the sulfur source for the cysteine synthesis pathway
YPA_2182	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
YPA_2183	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_2185	COG2190	(PTS) system
YPA_2186	COG1943	Transposase
YPA_2187	COG2205	protein histidine kinase activity
YPA_2188	COG0745	RESPONSE REGULATOR receiver
YPA_2189	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
YPA_2192	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
YPA_2193	COG0006	proline dipeptidase activity
YPA_2195	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
YPA_2197	COG5002	protein histidine kinase activity
YPA_2197	COG3850	Histidine kinase
YPA_2198	COG0745	RESPONSE REGULATOR receiver
YPA_2201	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
YPA_2202	COG4208	sulfate ABC transporter
YPA_2203	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
YPA_2204	COG4150	thiosulfate binding
YPA_2206	COG1737	Transcriptional regulator
YPA_2207	COG2731	YhcH YjgK YiaL family protein
YPA_2209	COG4886	Leucine-rich repeat (LRR) protein
YPA_2212	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
YPA_2213	COG2837	iron assimilation
YPA_2215	COG3111	PFAM Bacterial OB fold (BOF) protein
YPA_2227	COG3005	denitrification pathway
YPA_2228	COG3043	anaerobic respiration
YPA_2230	COG3062	negative regulation of establishment of protein localization
YPA_2231	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
YPA_2231	COG1149	4fe-4S ferredoxin, iron-sulfur binding domain protein
YPA_2232	COG2197	response regulator
YPA_2234	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
YPA_2236	COG1988	membrane-bound metal-dependent
YPA_2237	COG0641	radical SAM
YPA_2238	COG3119	arylsulfatase activity
YPA_2239	COG3842	ATPase activity
YPA_2240	COG1175	transmembrane transport
YPA_2241	COG1840	ABC-type Fe3 transport system, periplasmic component
YPA_2243	COG1393	Belongs to the ArsC family
YPA_2245	COG1876	peptidase activity
YPA_2249	COG2321	neutral zinc metallopeptidase
YPA_2251	COG1943	Transposase
YPA_2252	COG3317	Gram-negative-bacterium-type cell outer membrane assembly
YPA_2254	COG2716	regulation of RNA biosynthetic process
YPA_2255	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
YPA_2259	COG0628	permease
YPA_2260	COG4783	chaperone-mediated protein folding
YPA_2261	COG1393	Belongs to the ArsC family
YPA_2263	COG1943	Transposase
YPA_2266	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
YPA_2267	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
YPA_2271	COG0581	inorganic phosphate transmembrane transporter activity
YPA_2273	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
YPA_2274	COG0248	Ppx GppA phosphatase
YPA_2275	COG2239	Acts as a magnesium transporter
YPA_2276	COG0443	Heat shock 70 kDa protein
YPA_2280	COG1177	transmembrane transport
YPA_2281	COG1176	ABC-type spermidine putrescine transport system, permease component I
YPA_2283	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
YPA_2285	COG3842	ATPase activity
YPA_2290	COG2205	protein histidine kinase activity
YPA_2291	COG2205	protein histidine kinase activity
YPA_2292	COG0745	RESPONSE REGULATOR receiver
YPA_2293	COG3422	double-strand break repair
YPA_2299	COG0351	phosphomethylpyrimidine kinase
YPA_2302	COG3328	transposase activity
YPA_2309	COG1943	Transposase
YPA_2310	COG1943	Transposase
YPA_2312	COG0517	IMP dehydrogenase activity
YPA_2312	COG0516	GMP reductase activity
YPA_2316	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
YPA_2317	COG2976	Protein conserved in bacteria
YPA_2326	COG3468	outer membrane autotransporter barrel domain protein
YPA_2327	COG3468	outer membrane autotransporter barrel domain protein
YPA_2331	COG2975	iron-sulfur cluster assembly
YPA_2332	COG0633	Ferredoxin
YPA_2333	COG0443	Heat shock 70 kDa protein
YPA_2336	COG0822	iron-sulfur transferase activity
YPA_2337	COG1104	cysteine desulfurase activity
YPA_2340	COG0483	inositol monophosphate 1-phosphatase activity
YPA_2341	COG2215	Belongs to the NiCoT transporter (TC 2.A.52) family
YPA_2342	COG3683	transport system, periplasmic component
YPA_2343	COG3711	transcriptional antiterminator
YPA_2344	COG2814	Major facilitator Superfamily
YPA_2348	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
YPA_2348	COG1017	nitric oxide dioxygenase activity
YPA_2349	COG2188	Transcriptional regulator
YPA_2350	COG2188	Transcriptional regulator
YPA_2351	COG0347	Belongs to the P(II) protein family
YPA_2352	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
YPA_2352	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
YPA_2353	COG2204	response regulator
YPA_2354	COG3170	Tfp pilus assembly protein FimV
YPA_2355	COG2205	protein histidine kinase activity
YPA_2356	COG1943	Transposase
YPA_2362	COG0590	tRNA wobble adenosine to inosine editing
YPA_2363	COG0560	Phosphoserine phosphatase
YPA_2365	COG1737	Transcriptional regulator
YPA_2366	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
YPA_2367	COG1943	Transposase
YPA_2369	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
YPA_2373	COG2113	Glycine betaine
YPA_2374	COG4176	ABC-type proline glycine betaine transport system permease component
YPA_2375	COG4175	Glycine betaine
YPA_2376	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
YPA_2382	COG3328	transposase activity
YPA_2386	COG1278	Cold shock
YPA_2387	COG0747	negative chemotaxis
YPA_2389	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
YPA_2390	COG4559	Part of the ABC transporter complex HmuTUV involved in hemin import. Responsible for energy coupling to the transport system
YPA_2391	COG1124	(ABC) transporter
YPA_2397	COG0378	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG
YPA_2400	COG4413	Urea transporter
YPA_2401	COG3376	Belongs to the NiCoT transporter (TC 2.A.52) family
YPA_2403	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
YPA_2404	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
YPA_2405	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
YPA_2407	COG1440	protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity
YPA_2408	COG1455	protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity
YPA_2409	COG1447	Phosphotransferase system cellobiose-specific component IIA
YPA_2410	COG2169	Transcriptional regulator
YPA_2410	COG1917	Cupin 2, conserved barrel domain protein
YPA_2413	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
YPA_2414	COG0033	Phosphoglucomutase
YPA_2418	COG0745	RESPONSE REGULATOR receiver
YPA_2419	COG2205	protein histidine kinase activity
YPA_2425	COG3272	Protein of unknown function (DUF1722)
YPA_2427	COG5212	phosphodiesterase
YPA_2428	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
YPA_2429	COG2049	5-oxoprolinase (ATP-hydrolyzing) activity
YPA_2430	COG2049	5-oxoprolinase (ATP-hydrolyzing) activity
YPA_2431	COG1984	allophanate hydrolase subunit 2
YPA_2442	COG0513	Belongs to the DEAD box helicase family
YPA_2444	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
YPA_2446	COG3073	An anti-sigma factor for extracytoplasmic function (ECF) sigma factor sigma-E (RpoE). ECF sigma factors are held in an inactive form by an anti-sigma factor until released by regulated intramembrane proteolysis (RIP). RIP occurs when an extracytoplasmic signal triggers a concerted proteolytic cascade to transmit information and elicit cellular responses. The membrane-spanning regulatory substrate protein is first cut periplasmically (site-1 protease, S1P, DegS), then within the membrane itself (site-2 protease, S2P, RseP), while cytoplasmic proteases finish degrading the anti-sigma factor, liberating sigma-E
YPA_2447	COG3026	antisigma factor binding
YPA_2448	COG3086	response to oxidative stress
YPA_2451	COG0681	Belongs to the peptidase S26 family
YPA_2457	COG0582	viral genome integration into host DNA
YPA_2458	COG2963	transposase activity
YPA_2459	COG0582	viral genome integration into host DNA
YPA_2460	COG0596	Alpha beta hydrolase
YPA_2463	COG0735	belongs to the Fur family
YPA_2468	COG1943	Transposase
YPA_2469	COG2190	(PTS) system
YPA_2469	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
YPA_2469	COG1263	PTS System
YPA_2471	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
YPA_2472	COG1846	Transcriptional regulator
YPA_2472	COG1940	carbohydrate kinase activity
YPA_2473	COG0647	UMP catabolic process
YPA_2474	COG0367	asparagine synthase
YPA_2476	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
YPA_2478	COG1702	phosphate starvation-inducible protein PhoH
YPA_2480	COG4535	Mg2 and Co2 transporter CorC
YPA_2481	COG0815	Transfers the fatty acyl group on membrane lipoproteins
YPA_2483	COG0765	amino acid transport
YPA_2484	COG0765	amino acid transport
YPA_2485	COG1126	abc transporter atp-binding protein
YPA_2486	COG2888	peptidyl-tyrosine sulfation
YPA_2489	COG1466	dna polymerase III delta subunit
YPA_2491	COG0799	negative regulation of ribosome biogenesis
YPA_2493	COG0768	penicillin binding
YPA_2494	COG0772	Belongs to the SEDS family
YPA_2495	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
YPA_2498	COG1686	Belongs to the peptidase S11 family
YPA_2502	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
YPA_2503	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
YPA_2504	COG1278	Cold shock
YPA_2505	COG1278	Cold shock
YPA_2506	COG2197	response regulator
YPA_2511	COG5265	(ABC) transporter
YPA_2513	COG3718	enzyme involved in inositol metabolism
YPA_2516	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
YPA_2517	COG0673	inositol 2-dehydrogenase activity
YPA_2518	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_2519	COG1129	ABC transporter
YPA_2520	COG1879	ABC-type sugar transport system periplasmic component
YPA_2521	COG0673	inositol 2-dehydrogenase activity
YPA_2522	COG0673	inositol 2-dehydrogenase activity
YPA_2523	COG3962	Belongs to the TPP enzyme family
YPA_2528	COG2373	Large extracellular alpha-helical protein
YPA_2529	COG4953	penicillin-binding protein 1C
YPA_2530	COG3328	transposase activity
YPA_2531	COG4953	penicillin-binding protein 1C
YPA_2532	COG3423	Transcriptional regulator
YPA_2543	COG2850	peptidyl-arginine hydroxylation
YPA_2544	COG3328	transposase activity
YPA_2551	COG0656	L-ascorbic acid biosynthetic process
YPA_2552	COG0667	Aldo Keto reductase
YPA_2558	COG0671	phosphoesterase, PA-phosphatase related
YPA_2558	COG2453	phosphatase
YPA_2559	COG2267	carboxylic ester hydrolase activity
YPA_2561	COG4589	Belongs to the CDS family
YPA_2562	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
YPA_2566	COG2501	S4 domain
YPA_2567	COG1943	Transposase
YPA_2569	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
YPA_2571	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
YPA_2572	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
YPA_2573	COG3127	ABC-type transport system involved in lysophospholipase L1, biosynthesis, permease component
YPA_2574	COG4181	ATPase activity
YPA_2575	COG2755	lipolytic protein G-D-S-L family
YPA_2576	COG0300	oxidoreductase activity
YPA_2577	COG3118	belongs to the thioredoxin family
YPA_2578	COG0330	HflC and HflK could
YPA_2579	COG1585	Membrane protein implicated in regulation of membrane protease activity
YPA_2580	COG0789	Transcriptional regulator
YPA_2581	COG2217	Heavy metal translocating P-type atpase
YPA_2582	COG3735	TraB family
YPA_2583	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
YPA_2585	COG0737	Belongs to the 5'-nucleotidase family
YPA_2586	COG0737	Belongs to the 5'-nucleotidase family
YPA_2587	COG0737	Belongs to the 5'-nucleotidase family
YPA_2588	COG2223	nitrite transmembrane transporter activity
YPA_2589	COG4651	solute:proton antiporter activity
YPA_2589	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
YPA_2590	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
YPA_2591	COG3765	Modulates the polysaccharide chain length of enterobacterial common antigen (ECA)
YPA_2595	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YPA_2596	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
YPA_2597	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
YPA_2604	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YPA_2609	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
YPA_2609	COG0543	2 iron, 2 sulfur cluster binding
YPA_2616	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
YPA_2618	COG2832	Protein of unknown function (DUF454)
YPA_2621	COG3264	Mechanosensitive ion channel
YPA_2621	COG1196	nuclear chromosome segregation
YPA_2624	COG3264	Mechanosensitive ion channel
YPA_2624	COG1196	nuclear chromosome segregation
YPA_2625	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
YPA_2626	COG1309	transcriptional regulator
YPA_2627	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
YPA_2628	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
YPA_2630	COG0257	Belongs to the bacterial ribosomal protein bL36 family
YPA_2634	COG3695	enzyme binding
YPA_2635	COG3126	Type III secretion system lipoprotein chaperone (YscW)
YPA_2636	COG1946	Acyl-CoA thioesterase
YPA_2637	COG0004	ammonium transporteR
YPA_2638	COG0347	Belongs to the P(II) protein family
YPA_2639	COG1132	(ABC) transporter
YPA_2640	COG1132	(ABC) transporter
YPA_2641	COG1522	sequence-specific DNA binding
YPA_2644	COG4533	DNA binding
YPA_2646	COG0824	Thioesterase
YPA_2647	COG1555	photosystem II stabilization
YPA_2648	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
YPA_2649	COG0776	regulation of translation
YPA_2650	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
YPA_2654	COG0271	Belongs to the BolA IbaG family
YPA_2655	COG3056	Lipoprotein
YPA_2656	COG2223	nitrite transmembrane transporter activity
YPA_2658	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
YPA_2659	COG0843	Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B
YPA_2660	COG1845	cytochrome c oxidase, subunit III
YPA_2661	COG3125	oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor
YPA_2663	COG2814	Major facilitator Superfamily
YPA_2665	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
YPA_2666	COG0693	protein deglycase activity
YPA_2670	COG0142	geranyltranstransferase activity
YPA_2672	COG1943	Transposase
YPA_2673	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
YPA_2674	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
YPA_2677	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
YPA_2677	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
YPA_2681	COG1943	Transposase
YPA_2682	COG1943	Transposase
YPA_2683	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
YPA_2684	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
YPA_2685	COG1862	Preprotein translocase
YPA_2687	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
YPA_2688	COG3124	Converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine prosthetic group from ACP
YPA_2689	COG0450	alkyl hydroperoxide reductase
YPA_2693	COG0366	Alpha amylase catalytic
YPA_2695	COG1114	Component of the transport system for branched-chain amino acids
YPA_2697	COG5002	protein histidine kinase activity
YPA_2698	COG0745	RESPONSE REGULATOR receiver
YPA_2699	COG0420	3'-5' exonuclease activity
YPA_2700	COG0419	ATPase involved in DNA repair
YPA_2703	COG0419	ATPase involved in DNA repair
YPA_2704	COG1940	carbohydrate kinase activity
YPA_2709	COG2226	methyltransferase
YPA_2719	COG0583	DNA-binding transcription factor activity
YPA_2720	COG2195	Cleaves the N-terminal amino acid of tripeptides
YPA_2724	COG1477	protein flavinylation
YPA_2728	COG2869	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
YPA_2729	COG1805	sodium ion transport
YPA_2730	COG1726	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
YPA_2732	COG3034	peptidoglycan biosynthetic process
YPA_2733	COG0121	glutamine amidotransferase
YPA_2735	COG1960	acyl-CoA dehydrogenase activity
YPA_2737	COG3914	O-linked N-acetylglucosamine transferase SPINDLY family
YPA_2741	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
YPA_2744	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
YPA_2754	COG2814	Major facilitator Superfamily
YPA_2755	COG1296	Branched-chain amino acid permease (Azaleucine resistance)
YPA_2757	COG1846	Transcriptional regulator
YPA_2758	COG1566	PFAM secretion protein HlyD family protein
YPA_2759	COG2814	Major facilitator Superfamily
YPA_2760	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
YPA_2761	COG3118	belongs to the thioredoxin family
YPA_2763	COG0045	succinate-CoA ligase (ADP-forming) activity
YPA_2763	COG1042	CoA-binding domain protein
YPA_2763	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
YPA_2764	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
YPA_2765	COG5544	Lipoprotein
YPA_2766	COG0542	response to heat
YPA_2768	COG0564	pseudouridine synthase activity
YPA_2769	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
YPA_2770	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
YPA_2771	COG1943	Transposase
YPA_2772	COG1943	Transposase
YPA_2773	COG0077	Prephenate dehydratase
YPA_2773	COG1605	Chorismate mutase
YPA_2779	COG0529	Catalyzes the synthesis of activated sulfate
YPA_2782	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
YPA_2787	COG1388	LysM domain
YPA_2787	COG4942	peptidase
YPA_2788	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
YPA_2791	COG0698	ribose 5-phosphate isomerase
YPA_2792	COG1063	alcohol dehydrogenase
YPA_2793	COG1028	Short-chain dehydrogenase reductase Sdr
YPA_2794	COG2376	Dihydroxyacetone kinase
YPA_2797	COG1055	Involved in arsenical resistance. Thought to form the channel of an arsenite pump
YPA_2800	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
YPA_2801	COG1858	cytochrome C peroxidase
YPA_2803	COG4771	TonB-dependent receptor
YPA_2807	COG0024	Methionine aminopeptidase
YPA_2809	COG1951	Catalyzes the reversible hydration of fumarate to (S)- malate
YPA_2809	COG1838	Catalyzes the reversible hydration of fumarate to (S)- malate
YPA_2810	COG1070	Carbohydrate kinase
YPA_2811	COG3623	hexulose-6-phosphate isomerase
YPA_2812	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_2813	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_2814	COG1129	ABC transporter
YPA_2815	COG1943	Transposase
YPA_2817	COG1349	DNA-binding transcription factor activity
YPA_2818	COG0235	Class ii aldolase
YPA_2819	COG0243	molybdopterin cofactor binding
YPA_2820	COG0437	4 iron, 4 sulfur cluster binding
YPA_2821	COG3302	dmso reductase anchor subunit
YPA_2822	COG3381	protein complex oligomerization
YPA_2823	COG3038	cytochrome b561
YPA_2824	COG3783	Cytochrome b(562)
YPA_2828	COG1129	ABC transporter
YPA_2829	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_2830	COG3959	Transketolase, thiamine diphosphate binding domain
YPA_2831	COG3958	Transketolase
YPA_2832	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
YPA_2841	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
YPA_2842	COG1238	metal cluster binding
YPA_2843	COG2918	glutathione biosynthetic process
YPA_2845	COG1943	Transposase
YPA_2846	COG4536	flavin adenine dinucleotide binding
YPA_2847	COG4137	Cytochrome C assembly protein
YPA_2848	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
YPA_2853	COG1943	Transposase
YPA_2854	COG3137	Salt-induced outer membrane protein
YPA_2855	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
YPA_2856	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
YPA_2857	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
YPA_2858	COG3279	Response regulator of the LytR AlgR family
YPA_2859	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
YPA_2860	COG1605	Chorismate mutase
YPA_2860	COG0287	Prephenate dehydrogenase
YPA_2861	COG1605	Chorismate mutase
YPA_2861	COG0077	Prephenate dehydratase
YPA_2871	COG0720	synthase
YPA_2872	COG0602	queuosine metabolic process
YPA_2876	COG3956	TIGRFAM MazG family protein
YPA_2877	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
YPA_2878	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
YPA_2880	COG3437	response regulator, receiver
YPA_2880	COG2205	protein histidine kinase activity
YPA_2880	COG3850	Histidine kinase
YPA_2880	COG4999	Histidine kinase
YPA_2881	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
YPA_2885	COG2860	membrane
YPA_2890	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
YPA_2891	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
YPA_2892	COG1120	ATPase activity
YPA_2893	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
YPA_2894	COG1643	Atp-dependent helicase
YPA_2895	COG1514	Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'- phosphomonoester
YPA_2898	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
YPA_2899	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)
YPA_2900	COG0617	tRNA 3'-terminal CCA addition
YPA_2901	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
YPA_2905	COG0726	polysaccharide deacetylase
YPA_2907	COG0842	Transport permease protein
YPA_2908	COG1131	(ABC) transporter
YPA_2909	COG0288	reversible hydration of carbon dioxide
YPA_2910	COG0634	Belongs to the purine pyrimidine phosphoribosyltransferase family
YPA_2911	COG2132	Multicopper oxidase
YPA_2915	COG0697	spore germination
YPA_2917	COG1049	propionate catabolic process, 2-methylcitrate cycle
YPA_2918	COG1943	Transposase
YPA_2919	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
YPA_2920	COG0508	dehydrogenase complex catalyzes the overall conversion of
YPA_2921	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
YPA_2922	COG2186	Transcriptional regulator
YPA_2923	COG1113	amino acid transport
YPA_2924	COG3725	Membrane protein required for beta-lactamase induction
YPA_2925	COG3023	N-Acetylmuramoyl-L-alanine amidase
YPA_2927	COG4969	Belongs to the N-Me-Phe pilin family
YPA_2928	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
YPA_2929	COG1459	type II secretion system
YPA_2931	COG0237	dephospho-CoA kinase activity
YPA_2934	COG1943	Transposase
YPA_2939	COG0582	viral genome integration into host DNA
YPA_2940	COG0795	lipopolysaccharide-transporting ATPase activity
YPA_2941	COG0795	lipopolysaccharide-transporting ATPase activity
YPA_2943	COG2927	DNA polymerase III (CHI subunit)
YPA_2944	COG0525	valine-tRNA ligase activity
YPA_2946	COG3076	Globally modulates RNA abundance by binding to RNase E (Rne) and regulating its endonucleolytic activity. Can modulate Rne action in a substrate-dependent manner by altering the composition of the degradosome
YPA_2948	COG0078	Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline
YPA_2949	COG2731	YhcH YjgK YiaL family protein
YPA_2952	COG0601	transmembrane transport
YPA_2953	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
YPA_2954	COG0444	Belongs to the ABC transporter superfamily
YPA_2955	COG4608	Belongs to the ABC transporter superfamily
YPA_2958	COG2188	Transcriptional regulator
YPA_2959	COG3624	Phosphonate C-P lyase system protein PhnG
YPA_2960	COG3625	alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase activity
YPA_2961	COG3626	phosphonate metabolism
YPA_2962	COG3627	carbon phosphorus lyase activity
YPA_2963	COG4107	phosphonate C-P lyase system protein PhnK
YPA_2964	COG4778	phosphonate C-P lyase system protein PhnL
YPA_2965	COG3454	Phosphonate metabolism
YPA_2966	COG3709	Catalyzes the phosphorylation of ribose 1,5-bisphosphate to 5-phospho-D-ribosyl alpha-1-diphosphate (PRPP)
YPA_2967	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
YPA_2968	COG0702	epimerase
YPA_2971	COG3842	ATPase activity
YPA_2972	COG0395	ABC-type sugar transport system, permease component
YPA_2974	COG1653	transport
YPA_2978	COG3153	acetyltransferase
YPA_2984	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
YPA_2986	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
YPA_2990	COG0513	Belongs to the DEAD box helicase family
YPA_2993	COG2801	Transposase and inactivated derivatives
YPA_2995	COG2423	ornithine cyclodeaminase activity
YPA_2996	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
YPA_2997	COG0823	Involved in the tonB-independent uptake of proteins
YPA_2998	COG0823	Involved in the tonB-independent uptake of proteins
YPA_2999	COG5645	(Lipo)protein
YPA_3003	COG3977	Valine--pyruvate aminotransferase
YPA_3005	COG0366	Alpha amylase catalytic
YPA_3008	COG2885	chlorophyll binding
YPA_3010	COG2818	Glycosylase
YPA_3014	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_3014	COG2213	PTS system mannitol-specific
YPA_3016	COG3722	fumarate hydratase activity
YPA_3023	COG0840	transmembrane signaling receptor activity
YPA_3024	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
YPA_3026	COG3383	formate dehydrogenase (NAD+) activity
YPA_3026	COG0243	molybdopterin cofactor binding
YPA_3027	COG0243	molybdopterin cofactor binding
YPA_3027	COG3383	formate dehydrogenase (NAD+) activity
YPA_3028	COG0437	4 iron, 4 sulfur cluster binding
YPA_3029	COG2864	formate dehydrogenase
YPA_3032	COG3276	selenocysteine insertion sequence binding
YPA_3038	COG2801	Transposase and inactivated derivatives
YPA_3040	COG3133	Outer membrane lipoprotein
YPA_3044	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
YPA_3045	COG1191	sigma factor activity
YPA_3050	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
YPA_3054	COG3710	Transcriptional regulator
YPA_3058	COG1256	bacterial-type flagellum assembly
YPA_3060	COG1706	bacterial-type flagellum-dependent cell motility
YPA_3061	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
YPA_3062	COG4786	Flagellar basal body rod
YPA_3063	COG4787	bacterial-type flagellum-dependent cell motility
YPA_3064	COG1749	Flagellar hook protein flgE
YPA_3065	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
YPA_3066	COG1558	bacterial-type flagellum-dependent cell motility
YPA_3067	COG1815	bacterial-type flagellum-dependent cell motility
YPA_3068	COG1261	Involved in the assembly process of the P-ring formation. It may associate with FlgF on the rod constituting a structure essential for the P-ring assembly or may act as a modulator protein for the P-ring assembly
YPA_3080	COG2204	response regulator
YPA_3085	COG1987	bacterial-type flagellum assembly
YPA_3086	COG1684	flagellar biosynthetic protein fliR
YPA_3087	COG1377	Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
YPA_3092	COG4592	Periplasmic binding protein
YPA_3096	COG1943	Transposase
YPA_3099	COG4964	Belongs to the GSP D family
YPA_3100	COG4964	Belongs to the GSP D family
YPA_3109	COG0848	biopolymer transport protein
YPA_3110	COG0811	peptide transport
YPA_3111	COG0626	cystathionine gamma-synthase activity
YPA_3112	COG0586	Pfam SNARE associated Golgi protein
YPA_3113	COG2207	Transcriptional regulator
YPA_3114	COG1979	alcohol dehydrogenase
YPA_3115	COG0656	L-ascorbic acid biosynthetic process
YPA_3118	COG2132	Multicopper oxidase
YPA_3119	COG0204	Acyl-transferase
YPA_3120	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
YPA_3121	COG2249	NAD(P)H dehydrogenase (quinone) activity
YPA_3122	COG0583	DNA-binding transcription factor activity
YPA_3123	COG0187	DNA topoisomerase II activity
YPA_3124	COG3150	esterase
YPA_3125	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
YPA_3126	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
YPA_3127	COG3151	Protein conserved in bacteria
YPA_3128	COG0494	nUDIX hydrolase
YPA_3129	COG1538	Outer membrane efflux protein
YPA_3131	COG0754	glutathionylspermidine amidase activity
YPA_3132	COG3384	dioxygenase
YPA_3135	COG0531	amino acid
YPA_3138	COG3025	triphosphatase activity
YPA_3139	COG4991	sh3 domain protein
YPA_3142	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
YPA_3146	COG0358	DNA primase activity
YPA_3147	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
YPA_3163	COG0251	oxidation-reduction process
YPA_3172	COG1289	transmembrane transporter activity
YPA_3176	COG0395	ABC-type sugar transport system, permease component
YPA_3178	COG1653	transport
YPA_3179	COG1609	Transcriptional regulator
YPA_3180	COG3459	Glycosyltransferase 36 associated
YPA_3181	COG3842	ATPase activity
YPA_3185	COG3210	domain, Protein
YPA_3186	COG3210	domain, Protein
YPA_3188	COG3210	domain, Protein
YPA_3189	COG3210	domain, Protein
YPA_3190	COG3210	domain, Protein
YPA_3191	COG2831	hemolysin activation secretion protein
YPA_3192	COG4245	von Willebrand factor, type A
YPA_3195	COG4245	von Willebrand factor, type A
YPA_3198	COG3247	response to pH
YPA_3199	COG0446	pyridine nucleotide-disulphide oxidoreductase
YPA_3199	COG1902	pentaerythritol trinitrate reductase activity
YPA_3202	COG1451	nucleotide metabolic process
YPA_3203	COG0673	inositol 2-dehydrogenase activity
YPA_3205	COG1943	Transposase
YPA_3207	COG2721	sulfolactate sulfo-lyase activity
YPA_3208	COG0246	Mannitol dehydrogenase
YPA_3209	COG0246	Mannitol dehydrogenase
YPA_3211	COG2271	Major facilitator Superfamily
YPA_3214	COG0586	Pfam SNARE associated Golgi protein
YPA_3218	COG4575	ribosome binding
YPA_3219	COG5393	Putative Actinobacterial Holin-X, holin superfamily III
YPA_3221	COG2259	Doxx family
YPA_3222	COG0435	Glutathione S-transferase
YPA_3225	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
YPA_3228	COG0551	DNA topoisomerase type I activity
YPA_3230	COG0758	DNA mediated transformation
YPA_3234	COG0569	domain protein
YPA_3236	COG3036	rescue of stalled ribosome
YPA_3237	COG0789	Transcriptional regulator
YPA_3240	COG0522	One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit
YPA_3243	COG0201	protein transport
YPA_3245	COG1841	ribosomal large subunit assembly
YPA_3253	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
YPA_3254	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
YPA_3256	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
YPA_3259	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
YPA_3264	COG0051	transcription antitermination factor activity, RNA binding
YPA_3268	COG1943	Transposase
YPA_3271	COG0049	tRNA binding
YPA_3272	COG0048	Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit
YPA_3276	COG2964	Protein conserved in bacteria
YPA_3277	COG0545	Peptidyl-prolyl cis-trans isomerase
YPA_3279	COG1047	Peptidyl-prolyl cis-trans
YPA_3280	COG3529	nucleic-acid-binding protein containing a Zn-ribbon domain
YPA_3283	COG0488	(ABC) transporter
YPA_3284	COG0488	(ABC) transporter
YPA_3285	COG1216	Glycosyl transferase, family 2
YPA_3287	COG2175	clavaminate synthase activity
YPA_3288	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
YPA_3290	COG4521	taurine ABC transporter
YPA_3292	COG0429	hydrolase of the alpha beta-hydrolase fold
YPA_3294	COG3954	Phosphoribulokinase
YPA_3296	COG1765	OsmC-like protein
YPA_3298	COG1289	transmembrane transporter activity
YPA_3301	COG0433	COG0433 Predicted ATPase
YPA_3302	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
YPA_3303	COG1486	melibiose metabolic process
YPA_3307	COG0402	S-adenosylhomocysteine deaminase activity
YPA_3308	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
YPA_3309	COG2146	nitrite reductase [NAD(P)H] activity
YPA_3312	COG0180	Tryptophanyl-tRNA synthetase
YPA_3313	COG0546	phosphoglycolate phosphatase activity
YPA_3314	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
YPA_3319	COG4796	Type ii and iii secretion system protein
YPA_3325	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
YPA_3326	COG0494	nUDIX hydrolase
YPA_3328	COG1011	Hydrolase
YPA_3329	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
YPA_3333	COG0745	RESPONSE REGULATOR receiver
YPA_3334	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
YPA_3335	COG2183	response to ionizing radiation
YPA_3336	COG1918	ferrous iron import across plasma membrane
YPA_3343	COG1640	4-alpha-glucanotransferase
YPA_3344	COG0058	SHG alpha-glucan phosphorylase activity
YPA_3345	COG0058	SHG alpha-glucan phosphorylase activity
YPA_3349	COG1349	DNA-binding transcription factor activity
YPA_3353	COG2801	Transposase and inactivated derivatives
YPA_3354	COG3300	MHYT domain
YPA_3354	COG5001	Diguanylate cyclase
YPA_3356	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
YPA_3363	COG1943	Transposase
YPA_3366	COG2978	secondary active p-aminobenzoyl-glutamate transmembrane transporter activity
YPA_3367	COG2195	Cleaves the N-terminal amino acid of tripeptides
YPA_3368	COG4771	TonB-dependent receptor
YPA_3372	COG3433	isochorismatase activity
YPA_3372	COG2226	methyltransferase
YPA_3372	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
YPA_3373	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
YPA_3374	COG3433	isochorismatase activity
YPA_3374	COG2226	methyltransferase
YPA_3374	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
YPA_3380	COG1132	(ABC) transporter
YPA_3383	COG2610	gluconate transmembrane transporter activity
YPA_3386	COG3501	Rhs element vgr protein
YPA_3388	COG3209	COG3209 Rhs family protein
YPA_3391	COG0471	metal ion transport
YPA_3394	COG2801	Transposase and inactivated derivatives
YPA_3409	COG3501	Rhs element vgr protein
YPA_3412	COG3209	COG3209 Rhs family protein
YPA_3418	COG3501	Rhs element vgr protein
YPA_3420	COG3209	COG3209 Rhs family protein
YPA_3429	COG0812	UDP-N-acetylmuramate dehydrogenase activity
YPA_3430	COG4635	menaquinone-dependent protoporphyrinogen oxidase activity
YPA_3431	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
YPA_3432	COG1739	Uncharacterized protein family UPF0029
YPA_3433	COG1943	Transposase
YPA_3434	COG1739	Uncharacterized protein family UPF0029
YPA_3448	COG1943	Transposase
YPA_3450	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
YPA_3451	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
YPA_3452	COG1494	fructose-1,6-bisphosphatase
YPA_3454	COG3152	Membrane
YPA_3457	COG0583	DNA-binding transcription factor activity
YPA_3458	COG2120	A mycothiol (MSH, N-acetylcysteinyl-glucosaminyl- inositol) S-conjugate amidase, it recycles conjugated MSH to the N-acetyl cysteine conjugate (AcCys S-conjugate, a mercapturic acid) and the MSH precursor. Involved in MSH-dependent detoxification of a number of alkylating agents and antibiotics
YPA_3459	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
YPA_3460	COG0471	metal ion transport
YPA_3462	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
YPA_3467	COG4974	Belongs to the 'phage' integrase family
YPA_3468	COG3678	ATP-independent chaperone mediated protein folding
YPA_3469	COG0745	RESPONSE REGULATOR receiver
YPA_3470	COG2205	protein histidine kinase activity
YPA_3471	COG2169	Transcriptional regulator
YPA_3471	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
YPA_3472	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
YPA_3473	COG1045	serine acetyltransferase
YPA_3476	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
YPA_3477	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
YPA_3479	COG4942	peptidase
YPA_3480	COG2861	carbohydrate metabolic process
YPA_3481	COG2861	carbohydrate metabolic process
YPA_3483	COG0156	8-amino-7-oxononanoate synthase activity
YPA_3485	COG0859	PFAM glycosyl transferase family 9
YPA_3486	COG0859	PFAM glycosyl transferase family 9
YPA_3487	COG1519	Transferase
YPA_3491	COG0267	Belongs to the bacterial ribosomal protein bL33 family
YPA_3494	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
YPA_3499	COG1561	YicC-like family, N-terminal region
YPA_3500	COG2860	membrane
YPA_3504	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
YPA_3505	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
YPA_3506	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)
YPA_3507	COG0786	glutamate:sodium symporter activity
YPA_3508	COG2233	PERMEase
YPA_3509	COG2982	Protein involved in outer membrane biogenesis
YPA_3510	COG0456	acetyltransferase
YPA_3514	COG1295	ribonuclease BN
YPA_3515	COG1011	Hydrolase
YPA_3517	COG0174	glutamine synthetase
YPA_3518	COG1943	Transposase
YPA_3519	COG3852	Histidine kinase
YPA_3521	COG0635	Involved in the biosynthesis of porphyrin-containing compound
YPA_3524	COG1943	Transposase
YPA_3525	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
YPA_3525	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
YPA_3526	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
YPA_3527	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
YPA_3528	COG3084	Protein conserved in bacteria
YPA_3530	COG1763	Mo-molybdopterin cofactor biosynthetic process
YPA_3531	COG3328	transposase activity
YPA_3536	COG0494	nUDIX hydrolase
YPA_3541	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
YPA_3542	COG0849	cell division
YPA_3543	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
YPA_3547	COG0772	Belongs to the SEDS family
YPA_3550	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
YPA_3551	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
YPA_3552	COG0768	penicillin binding
YPA_3553	COG3116	cell division
YPA_3557	COG1609	Transcriptional regulator
YPA_3558	COG1943	Transposase
YPA_3560	COG0028	Belongs to the TPP enzyme family
YPA_3561	COG1022	Amp-dependent synthetase and ligase
YPA_3563	COG1943	Transposase
YPA_3565	COG0473	3-isopropylmalate dehydrogenase activity
YPA_3568	COG2814	Major facilitator Superfamily
YPA_3571	COG2814	Major facilitator Superfamily
YPA_3573	COG4143	(ABC) transporter
YPA_3574	COG1178	ABC-type Fe3 transport system permease component
YPA_3576	COG0586	Pfam SNARE associated Golgi protein
YPA_3577	COG0417	DNA replication proofreading
YPA_3581	COG2885	chlorophyll binding
YPA_3581	COG3047	cAMP biosynthetic process
YPA_3589	COG3501	Rhs element vgr protein
YPA_3599	COG2801	Transposase and inactivated derivatives
YPA_3602	COG0151	Belongs to the GarS family
YPA_3605	COG3068	Protein conserved in bacteria
YPA_3606	COG1515	deoxyribonuclease V activity
YPA_3611	COG0422	Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction
YPA_3613	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
YPA_3617	COG1943	Transposase
YPA_3624	COG0250	Participates in transcription elongation, termination and antitermination
YPA_3625	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
YPA_3631	COG0673	inositol 2-dehydrogenase activity
YPA_3632	COG1917	Cupin 2, conserved barrel domain protein
YPA_3632	COG2207	Transcriptional regulator
YPA_3633	COG1869	D-ribose catabolic process
YPA_3634	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
YPA_3636	COG0431	NADPH-dependent FMN reductase
YPA_3637	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
YPA_3639	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
YPA_3641	COG3077	Addiction module antitoxin, RelB DinJ family
YPA_3642	COG2252	PERMEase
YPA_3643	COG0025	NhaP-type Na H and K H
YPA_3645	COG1560	Kdo2-lipid A biosynthetic process
YPA_3647	COG1129	ABC transporter
YPA_3648	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_3650	COG1069	ribulokinase activity
YPA_3652	COG0625	glutathione transferase activity
YPA_3655	COG1943	Transposase
YPA_3656	COG1278	Cold shock
YPA_3657	COG1278	Cold shock
YPA_3659	COG3133	Outer membrane lipoprotein
YPA_3660	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
YPA_3662	COG0599	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
YPA_3666	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
YPA_3667	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
YPA_3669	COG4145	pantothenate transmembrane transporter activity
YPA_3670	COG3924	membrane
YPA_3671	COG0439	Biotin carboxylase
YPA_3672	COG0511	ligase activity, forming carbon-carbon bonds
YPA_3675	COG2041	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. The catalytic subunit MsrP is non-stereospecific, being able to reduce both (R-) and (S-) diastereoisomers of methionine sulfoxide
YPA_3676	COG0604	alcohol dehydrogenase
YPA_3677	COG2200	EAL domain
YPA_3677	COG2199	diguanylate cyclase activity
YPA_3678	COG1077	Cell shape determining protein MreB Mrl
YPA_3679	COG1792	Involved in formation and maintenance of cell shape
YPA_3680	COG2891	Involved in formation of the rod shape of the cell. May also contribute to regulation of formation of penicillin-binding proteins
YPA_3682	COG1530	ribonuclease E activity
YPA_3683	COG3164	Protein of unknown function
YPA_3684	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
YPA_3685	COG0312	modulator of DNA gyrase
YPA_3696	COG0583	DNA-binding transcription factor activity
YPA_3700	COG1012	belongs to the aldehyde dehydrogenase family
YPA_3703	COG2732	(Barnase) inhibitor
YPA_3705	COG0312	modulator of DNA gyrase
YPA_3707	COG3783	Cytochrome b(562)
YPA_3708	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
YPA_3709	COG0366	Alpha amylase catalytic
YPA_3710	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
YPA_3710	COG1263	PTS System
YPA_3711	COG1609	Transcriptional regulator
YPA_3716	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_3718	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_3719	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
YPA_3721	COG1508	bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding
YPA_3722	COG1137	ATPase activity
YPA_3723	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
YPA_3724	COG3117	lipopolysaccharide transmembrane transporter activity
YPA_3725	COG1778	Involved in the biosynthesis of lipopolysaccharides (LPSs). Catalyzes the hydrolysis of 3-deoxy-D-manno-octulosonate 8-phosphate (KDO 8-P) to 3-deoxy-D-manno-octulosonate (KDO) and inorganic phosphate
YPA_3726	COG0517	IMP dehydrogenase activity
YPA_3726	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
YPA_3727	COG0530	calcium, potassium:sodium antiporter activity
YPA_3728	COG1127	ABC transporter
YPA_3729	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
YPA_3730	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
YPA_3731	COG2854	intermembrane phospholipid transfer
YPA_3732	COG3113	response to antibiotic
YPA_3733	COG5007	Belongs to the BolA IbaG family
YPA_3735	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
YPA_3736	COG1943	Transposase
YPA_3737	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
YPA_3738	COG3105	Protein conserved in bacteria
YPA_3739	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
YPA_3742	COG0625	glutathione transferase activity
YPA_3743	COG2969	positive regulation of protein catabolic process
YPA_3745	COG0493	'glutamate synthase
YPA_3746	COG0069	glutamate synthase activity
YPA_3746	COG0067	glutamate synthase
YPA_3746	COG0070	glutamate synthase
YPA_3747	COG1242	4 iron, 4 sulfur cluster binding
YPA_3748	COG5002	protein histidine kinase activity
YPA_3748	COG2198	Histidine kinase
YPA_3748	COG0784	Response regulator, receiver
YPA_3749	COG3155	Displays glyoxalase activity, catalyzing the conversion of glyoxal to glycolate
YPA_3751	COG2823	Periplasmic or secreted lipoprotein
YPA_3755	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
YPA_3756	COG1741	Belongs to the pirin family
YPA_3757	COG0583	DNA-binding transcription factor activity
YPA_3758	COG0435	Glutathione S-transferase
YPA_3762	COG2801	Transposase and inactivated derivatives
YPA_3766	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
YPA_3767	COG0058	SHG alpha-glucan phosphorylase activity
YPA_3772	COG3275	phosphorelay sensor kinase activity
YPA_3777	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
YPA_3778	COG2095	MarC family integral membrane protein
YPA_3782	COG3265	gluconokinase activity
YPA_3783	COG2610	gluconate transmembrane transporter activity
YPA_3784	COG1609	Transcriptional regulator
YPA_3785	COG1741	Belongs to the pirin family
YPA_3786	COG0745	RESPONSE REGULATOR receiver
YPA_3788	COG0191	fructose-bisphosphate aldolase activity
YPA_3790	COG1879	ABC-type sugar transport system periplasmic component
YPA_3791	COG1172	Belongs to the binding-protein-dependent transport system permease family
YPA_3794	COG2081	HI0933 family
YPA_3795	COG0306	phosphate transporter
YPA_3796	COG1943	Transposase
YPA_3798	COG0589	response to stress
YPA_3802	COG0339	signal peptide processing
YPA_3804	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
YPA_3805	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
YPA_3806	COG3835	regulator
YPA_3807	COG2610	gluconate transmembrane transporter activity
YPA_3808	COG1929	Belongs to the glycerate kinase type-1 family
YPA_3813	COG1295	ribonuclease BN
YPA_3814	COG2134	cdp-diacylglycerol pyrophosphatase
YPA_3815	COG2982	Protein involved in outer membrane biogenesis
YPA_3816	COG2200	EAL domain
YPA_3817	COG1942	4-Oxalocrotonate Tautomerase
YPA_3818	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
YPA_3819	COG0612	Peptidase, M16
YPA_3823	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
YPA_3824	COG2199	diguanylate cyclase activity
YPA_3824	COG2200	EAL domain
YPA_3825	COG3405	Belongs to the glycosyl hydrolase 8 (cellulase D) family
YPA_3826	COG4608	Belongs to the ABC transporter superfamily
YPA_3827	COG0444	Belongs to the ABC transporter superfamily
YPA_3828	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
YPA_3829	COG0601	transmembrane transport
YPA_3830	COG0747	negative chemotaxis
YPA_3831	COG2831	hemolysin activation secretion protein
YPA_3833	COG1943	Transposase
YPA_3834	COG2271	Major facilitator Superfamily
YPA_3838	COG0488	(ABC) transporter
YPA_3842	COG0560	Phosphoserine phosphatase
YPA_3843	COG3726	membrane protein affecting hemolysin expression
YPA_3848	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
YPA_3849	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
YPA_3850	COG0084	hydrolase, TatD family'
YPA_3851	COG4667	esterase of the alpha-beta hydrolase superfamily
YPA_3853	COG2823	Periplasmic or secreted lipoprotein
YPA_3855	COG0456	acetyltransferase
YPA_3856	COG3050	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The exact function of the psi subunit is
YPA_3860	COG3706	GGDEF domain
YPA_3864	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
YPA_3865	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
YPA_3868	COG0859	PFAM glycosyl transferase family 9
YPA_3870	COG2390	Transcriptional regulator
YPA_3871	COG2390	Transcriptional regulator
YPA_3880	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_3880	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
YPA_3880	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)
YPA_3881	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
YPA_3882	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
YPA_3883	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
YPA_3884	COG2207	Transcriptional regulator
YPA_3886	COG4269	membrane
YPA_3897	COG1401	restriction endodeoxyribonuclease activity
YPA_3901	COG3650	response to hydrogen peroxide
YPA_3902	COG1960	acyl-CoA dehydrogenase activity
YPA_3903	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
YPA_3904	COG0557	exoribonuclease II activity
YPA_3907	COG3242	Uncharacterized protein conserved in bacteria (DUF2065)
YPA_3908	COG0330	HflC and HflK could
YPA_3909	COG0330	HflC and HflK could
YPA_3910	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
YPA_3914	COG0860	N-Acetylmuramoyl-L-alanine amidase
YPA_3915	COG0802	atpase or kinase
YPA_3916	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
YPA_3916	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
YPA_3917	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)
YPA_3918	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
YPA_3921	COG1511	domain protein
YPA_3921	COG3264	Mechanosensitive ion channel
YPA_3923	COG1053	succinate dehydrogenase
YPA_3924	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
YPA_3926	COG3080	Seems to be involved in the anchoring of the catalytic components of the fumarate reductase complex to the cytoplasmic membrane
YPA_3927	COG2076	Multidrug Resistance protein
YPA_3935	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
YPA_3938	COG3383	formate dehydrogenase (NAD+) activity
YPA_3939	COG1142	4fe-4S ferredoxin, iron-sulfur binding domain protein
YPA_3940	COG0493	'glutamate synthase
YPA_3940	COG1142	4fe-4S ferredoxin, iron-sulfur binding domain protein
YPA_3941	COG1309	transcriptional regulator
YPA_3955	COG1454	alcohol dehydrogenase
YPA_3958	COG1454	alcohol dehydrogenase
YPA_3960	COG0629	single-stranded DNA binding
YPA_3961	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
YPA_3962	COG2315	Protein conserved in bacteria
YPA_3963	COG1448	Aminotransferase
YPA_3964	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
YPA_3965	COG0305	Participates in initiation and elongation during chromosome replication
YPA_3968	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
YPA_3969	COG0735	belongs to the Fur family
YPA_3971	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
YPA_3979	COG3121	Chaperone
YPA_3991	COG1358	cellular component organization or biogenesis
YPA_3996	COG3721	Heme iron utilization protein
YPA_3997	COG0702	epimerase
YPA_3999	COG4771	TonB-dependent receptor
YPA_4000	COG3720	iron ion transport
YPA_4001	COG4558	Periplasmic binding protein
YPA_4002	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
YPA_4004	COG0626	cystathionine gamma-synthase activity
YPA_4005	COG0814	amino acid
YPA_4006	COG0583	DNA-binding transcription factor activity
YPA_4007	COG0425	Belongs to the sulfur carrier protein TusA family
YPA_4008	COG2391	methyltransferase activity
YPA_4030	COG1301	dicarboxylic acid transport
YPA_4032	COG3162	membrane
YPA_4037	COG0488	(ABC) transporter
YPA_4038	COG0488	(ABC) transporter
YPA_4039	COG2885	chlorophyll binding
YPA_4040	COG2199	diguanylate cyclase activity
YPA_4043	COG0741	lytic transglycosylase activity
YPA_4044	COG2973	This protein is an aporepressor. When complexed with L- tryptophan it binds the operator region of the trp operon (5'- ACTAGT-'3') and prevents the initiation of transcription. The complex also regulates trp repressor biosynthesis by binding to its regulatory region
YPA_4047	COG2207	Transcriptional regulator
YPA_4047	COG3708	Transcriptional regulator
YPA_4048	COG3045	CreA protein
YPA_4049	COG0745	RESPONSE REGULATOR receiver
YPA_4058	COG0521	Mo-molybdopterin cofactor biosynthetic process
YPA_4061	COG1584	GPR1 FUN34 yaaH family protein
YPA_4065	COG0583	DNA-binding transcription factor activity
YPA_4067	COG0196	riboflavin kinase activity
YPA_4070	COG1047	Peptidyl-prolyl cis-trans
YPA_4072	COG1943	Transposase
YPA_4074	COG0505	Belongs to the CarA family
YPA_4075	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
YPA_4076	COG1280	lysine exporter protein (LysE YggA)
YPA_4077	COG2966	Psort location CytoplasmicMembrane, score
YPA_4079	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
YPA_4080	COG1943	Transposase
YPA_4087	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)
YPA_4090	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
YPA_4091	COG0564	pseudouridine synthase activity
YPA_4099	COG3851	Histidine kinase
YPA_4100	COG2197	response regulator
YPA_4101	COG2194	sulfuric ester hydrolase activity
YPA_4104	COG2986	histidine ammonia-lyase
YPA_4107	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
YPA_4113	COG4607	ABC-type enterochelin transport system periplasmic component
YPA_4115	COG4605	iron ion homeostasis
YPA_4116	COG4604	ABC transporter, ATP-binding protein
YPA_4123	COG0582	viral genome integration into host DNA
YPA_4124	COG1609	Transcriptional regulator
YPA_4124	COG2207	Transcriptional regulator
YPA_4125	COG4214	carbohydrate transport
YPA_4127	COG4213	ABC transporter substrate-binding protein
YPA_4129	COG1070	Carbohydrate kinase
YPA_4131	COG3121	Chaperone
YPA_4132	COG3188	usher protein
YPA_4133	COG3188	usher protein
YPA_4134	COG3188	usher protein
YPA_4136	COG3274	enterobacterial common antigen metabolic process
YPA_4138	COG2801	Transposase and inactivated derivatives
YPA_4139	COG0561	phosphatase activity
YPA_4140	COG0187	DNA topoisomerase II activity
YPA_4141	COG1195	it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP
YPA_4142	COG0592	DNA-directed DNA polymerase activity
YPA_4144	COG0230	Belongs to the bacterial ribosomal protein bL34 family
YPA_4147	COG0706	membrane insertase activity
YPA_4152	COG2252	PERMEase
YPA_4153	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
YPA_4154	COG0765	amino acid transport
YPA_4155	COG0765	amino acid transport
YPA_4156	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
YPA_4158	COG0704	Plays a role in the regulation of phosphate uptake
YPA_4160	COG0581	inorganic phosphate transmembrane transporter activity
YPA_4161	COG0573	inorganic phosphate transmembrane transporter activity
YPA_4162	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
YPA_4163	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
YPA_4173	COG3312	ion transport
YPA_CD0003	COG5599	Phosphatase
YPA_CD0004	COG1317	bacterial-type flagellum organization
YPA_CD0006	COG4669	(LipO)protein
YPA_CD0014	COG2207	Transcriptional regulator
YPA_CD0015	COG4792	protein secretion
YPA_CD0016	COG4791	protein targeting
YPA_CD0017	COG4794	Type iii secretion
YPA_CD0018	COG4790	Type iii secretion
YPA_CD0019	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
YPA_CD0028	COG4789	Type iii secretion
YPA_CD0031	COG0457	Tetratricopeptide repeat
YPA_CD0037	COG4886	Leucine-rich repeat (LRR) protein
YPA_CD0042	COG3177	Filamentation induced by cAMP protein fic
YPA_CD0043	COG2801	Transposase and inactivated derivatives
YPA_CD0046	COG2801	Transposase and inactivated derivatives
YPA_CD0048	COG1192	Involved in chromosome partitioning
YPA_CD0049	COG1475	DNA binding
YPA_CD0050	COG3609	addiction module antidote protein, CC2985 family
YPA_CD0051	COG5599	Phosphatase
YPA_CD0053	COG2801	Transposase and inactivated derivatives
YPA_CD0057	COG2801	Transposase and inactivated derivatives
YPA_CD0060	COG2801	Transposase and inactivated derivatives
YPA_CD0071	COG0515	serine threonine protein kinase
YPA_CD0073	COG2801	Transposase and inactivated derivatives
YPA_CD0074	COG4372	Transposase
YPA_CD0078	COG2801	Transposase and inactivated derivatives
YPA_CD0080	COG2963	transposase activity
YPA_MT0003	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
YPA_MT0004	COG5301	cellulose 1,4-beta-cellobiosidase activity
YPA_MT0004	COG5301	cellulose 1,4-beta-cellobiosidase activity
YPA_MT0012	COG3941	tape measure
YPA_MT0031	COG1475	DNA binding
YPA_MT0032	COG1475	DNA binding
YPA_MT0033	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)
YPA_MT0038	COG1943	Transposase
YPA_MT0052	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
YPA_MT0054	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
YPA_MT0071	COG3328	transposase activity
YPA_MT0074	COG3344	reverse transcriptase
YPA_MT0076	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
YPA_MT0090	COG1475	DNA binding
YPA_PCP0007	COG4683	PFAM Phage derived protein Gp49-like (DUF891)