locus-tag	class	description
PACID_00010	COG0593	it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids
PACID_00020	COG0577	efflux transmembrane transporter activity
PACID_00020	COG1136	(ABC) transporter
PACID_00030	COG1136	(ABC) transporter
PACID_00030	COG0577	efflux transmembrane transporter activity
PACID_00050	COG0592	DNA-directed DNA polymerase activity
PACID_00070	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
PACID_00080	COG5512	Zn-ribbon-containing possibly RNA-binding protein and truncated derivatives
PACID_00100	COG0187	DNA topoisomerase II activity
PACID_00110	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
PACID_00120	COG3266	domain, Protein
PACID_00130	COG0673	inositol 2-dehydrogenase activity
PACID_00140	COG1609	Transcriptional regulator
PACID_00150	COG1129	ABC transporter
PACID_00160	COG1172	Belongs to the binding-protein-dependent transport system permease family
PACID_00170	COG1879	ABC-type sugar transport system periplasmic component
PACID_00180	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
PACID_00190	COG1869	D-ribose catabolic process
PACID_00240	COG1028	Short-chain dehydrogenase reductase Sdr
PACID_00270	COG1396	sequence-specific DNA binding
PACID_00350	COG0039	L-malate dehydrogenase activity
PACID_00380	COG0281	malic enzyme
PACID_00390	COG0039	L-malate dehydrogenase activity
PACID_00400	COG1038	Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second
PACID_00470	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
PACID_00590	COG4138	Part of the ABC transporter complex BtuCDF involved in vitamin B12 import. Responsible for energy coupling to the transport system
PACID_00610	COG0714	Associated with various cellular activities
PACID_00740	COG3328	transposase activity
PACID_00780	COG4683	PFAM Phage derived protein Gp49-like (DUF891)
PACID_00810	COG4559	Part of the ABC transporter complex HmuTUV involved in hemin import. Responsible for energy coupling to the transport system
PACID_00820	COG4139	cobalamin transport
PACID_00860	COG0726	polysaccharide deacetylase
PACID_00880	COG0235	Class ii aldolase
PACID_00900	COG1063	alcohol dehydrogenase
PACID_00910	COG3414	Phosphotransferase system galactitol-specific IIB component
PACID_00920	COG3775	system Galactitol-specific IIC component
PACID_00960	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
PACID_00970	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
PACID_01020	COG1131	(ABC) transporter
PACID_01040	COG0095	Lipoate-protein ligase
PACID_01070	COG0765	amino acid transport
PACID_01080	COG1126	abc transporter atp-binding protein
PACID_01090	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
PACID_01120	COG1175	transmembrane transport
PACID_01140	COG3010	Converts N-acetylmannosamine-6-phosphate (ManNAc-6-P) to N-acetylglucosamine-6-phosphate (GlcNAc-6-P)
PACID_01180	COG2103	Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate
PACID_01320	COG1012	belongs to the aldehyde dehydrogenase family
PACID_01340	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
PACID_01400	COG2759	Belongs to the formate--tetrahydrofolate ligase family
PACID_01450	COG1136	(ABC) transporter
PACID_01460	COG2197	response regulator
PACID_01480	COG3636	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
PACID_01490	COG3657	addiction module killer protein
PACID_01500	COG1690	Belongs to the RtcB family
PACID_01510	COG0477	Major facilitator Superfamily
PACID_01520	COG1132	(ABC) transporter
PACID_01550	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
PACID_01570	COG2205	protein histidine kinase activity
PACID_01580	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
PACID_01590	COG4585	Histidine kinase
PACID_01610	COG5002	protein histidine kinase activity
PACID_01620	COG0745	RESPONSE REGULATOR receiver
PACID_01640	COG2132	Multicopper oxidase
PACID_01710	COG0175	sulfate reduction
PACID_01740	COG0730	response to heat
PACID_01770	COG1473	amidohydrolase
PACID_01800	COG0656	L-ascorbic acid biosynthetic process
PACID_01860	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
PACID_01870	COG0596	Alpha beta hydrolase
PACID_01890	COG2022	thiamine diphosphate biosynthetic process
PACID_01930	COG1309	transcriptional regulator
PACID_01950	COG2409	Drug exporters of the RND superfamily
PACID_01970	COG0438	transferase activity, transferring glycosyl groups
PACID_01990	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
PACID_02000	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
PACID_02020	COG2814	Major facilitator Superfamily
PACID_02040	COG0477	Major facilitator Superfamily
PACID_02050	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
PACID_02060	COG1914	H( )-stimulated, divalent metal cation uptake system
PACID_02070	COG1321	iron dependent repressor
PACID_02070	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PACID_02100	COG0281	malic enzyme
PACID_02140	COG1254	Belongs to the acylphosphatase family
PACID_02150	COG0045	succinate-CoA ligase (ADP-forming) activity
PACID_02160	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
PACID_02200	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
PACID_02220	COG1136	(ABC) transporter
PACID_02270	COG0205	6-phosphofructokinase activity
PACID_02350	COG3189	MarR family transcriptional regulator
PACID_02370	COG2217	Heavy metal translocating P-type atpase
PACID_02390	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
PACID_02400	COG0783	Belongs to the Dps family
PACID_02480	COG0456	acetyltransferase
PACID_02510	COG0435	Glutathione S-transferase
PACID_02550	COG0601	transmembrane transport
PACID_02610	COG2337	Toxic component of a toxin-antitoxin (TA) module
PACID_02630	COG1151	hydroxylamine reductase activity
PACID_02640	COG0633	Ferredoxin
PACID_02640	COG0543	2 iron, 2 sulfur cluster binding
PACID_02650	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
PACID_02680	COG2801	Transposase and inactivated derivatives
PACID_02710	COG1140	nitrate reductase beta subunit
PACID_02750	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
PACID_02770	COG0314	molybdopterin synthase activity
PACID_02790	COG0315	cyclic pyranopterin monophosphate synthase activity
PACID_02800	COG0315	cyclic pyranopterin monophosphate synthase activity
PACID_02800	COG0521	Mo-molybdopterin cofactor biosynthetic process
PACID_02820	COG0352	thiamine-phosphate diphosphorylase activity
PACID_02820	COG0351	phosphomethylpyrimidine kinase
PACID_02820	COG0819	Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway
PACID_02830	COG0352	thiamine-phosphate diphosphorylase activity
PACID_02840	COG3386	PFAM SMP-30 Gluconolaconase
PACID_02870	COG1172	Belongs to the binding-protein-dependent transport system permease family
PACID_02880	COG1172	Belongs to the binding-protein-dependent transport system permease family
PACID_02890	COG1129	ABC transporter
PACID_02910	COG1609	Transcriptional regulator
PACID_02980	COG1012	belongs to the aldehyde dehydrogenase family
PACID_03000	COG1609	Transcriptional regulator
PACID_03010	COG1904	glucuronate isomerase
PACID_03020	COG0246	Mannitol dehydrogenase
PACID_03030	COG1312	Catalyzes the dehydration of D-mannonate
PACID_03050	COG0656	L-ascorbic acid biosynthetic process
PACID_03070	COG4948	Mandelate Racemase Muconate Lactonizing
PACID_03110	COG1285	pathogenesis
PACID_03130	COG1609	Transcriptional regulator
PACID_03140	COG0584	glycerophosphoryl diester phosphodiesterase
PACID_03250	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
PACID_03270	COG1201	RNA secondary structure unwinding
PACID_03310	COG2801	Transposase and inactivated derivatives
PACID_03310	COG3415	Transposase
PACID_03370	COG0464	growth
PACID_03380	COG0518	GMP synthase (glutamine-hydrolyzing) activity
PACID_03380	COG0519	Catalyzes the synthesis of GMP from XMP
PACID_03470	COG1070	Carbohydrate kinase
PACID_03500	COG1940	carbohydrate kinase activity
PACID_03540	COG1136	(ABC) transporter
PACID_03550	COG0577	efflux transmembrane transporter activity
PACID_03550	COG1136	(ABC) transporter
PACID_03580	COG0641	radical SAM
PACID_03590	COG3119	arylsulfatase activity
PACID_03660	COG1482	cell wall glycoprotein biosynthetic process
PACID_03670	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
PACID_03680	COG1414	Transcriptional regulator
PACID_03690	COG0800	Aldolase
PACID_03700	COG1609	Transcriptional regulator
PACID_03720	COG2721	sulfolactate sulfo-lyase activity
PACID_03730	COG1904	glucuronate isomerase
PACID_03800	COG1904	glucuronate isomerase
PACID_03810	COG0246	Mannitol dehydrogenase
PACID_03860	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
PACID_03870	COG2826	transposase and inactivated derivatives, IS30 family
PACID_03920	COG2103	Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate
PACID_03960	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
PACID_04060	COG2211	Major facilitator Superfamily
PACID_04130	COG5564	TIM-barrel signal transduction protein
PACID_04150	COG2186	Transcriptional regulator
PACID_04170	COG0673	inositol 2-dehydrogenase activity
PACID_04180	COG1609	Transcriptional regulator
PACID_04190	COG1609	Transcriptional regulator
PACID_04200	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
PACID_04230	COG1119	ATPase activity
PACID_04250	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
PACID_04270	COG0586	Pfam SNARE associated Golgi protein
PACID_04280	COG1063	alcohol dehydrogenase
PACID_04310	COG1154	Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP)
PACID_04370	COG1253	flavin adenine dinucleotide binding
PACID_04440	COG2072	flavoprotein involved in K transport
PACID_04570	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
PACID_04610	COG0463	Glycosyl transferase, family 2
PACID_04640	COG0438	transferase activity, transferring glycosyl groups
PACID_04650	COG0438	transferase activity, transferring glycosyl groups
PACID_04660	COG0438	transferase activity, transferring glycosyl groups
PACID_04710	COG1207	Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP- GlcNAc). The C-terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N-acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5- monophosphate (from uridine 5-triphosphate), a reaction catalyzed by the N-terminal domain
PACID_04770	COG3925	protein-phosphocysteine-D-fructose-phosphotransferase system transporter activity
PACID_04770	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
PACID_04770	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
PACID_04780	COG1105	Belongs to the carbohydrate kinase PfkB family
PACID_04800	COG0765	amino acid transport
PACID_04810	COG0765	amino acid transport
PACID_04820	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
PACID_04830	COG1126	abc transporter atp-binding protein
PACID_04850	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
PACID_04980	COG1643	Atp-dependent helicase
PACID_05010	COG2094	Belongs to the DNA glycosylase MPG family
PACID_05050	COG1846	Transcriptional regulator
PACID_05060	COG0386	Belongs to the glutathione peroxidase family
PACID_05080	COG3118	belongs to the thioredoxin family
PACID_05090	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
PACID_05090	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
PACID_05100	COG0305	Participates in initiation and elongation during chromosome replication
PACID_05110	COG1937	Protein conserved in bacteria
PACID_05140	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
PACID_05160	COG0167	dihydroorotate dehydrogenase activity
PACID_05170	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
PACID_05170	COG1013	pyruvate-flavodoxin oxidoreductase activity
PACID_05170	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
PACID_05170	COG0674	pyruvate-flavodoxin oxidoreductase activity
PACID_05200	COG2186	Transcriptional regulator
PACID_05220	COG1620	l-lactate permease
PACID_05230	COG0247	lactate metabolic process
PACID_05240	COG1139	Iron-sulfur cluster binding protein
PACID_05250	COG1556	Lactate utilization protein
PACID_05260	COG1132	(ABC) transporter
PACID_05270	COG4988	ABC transporter
PACID_05280	COG1294	oxidase, subunit
PACID_05290	COG1271	oxidase subunit
PACID_05310	COG2197	response regulator
PACID_05370	COG1454	alcohol dehydrogenase
PACID_05400	COG0395	ABC-type sugar transport system, permease component
PACID_05420	COG2801	Transposase and inactivated derivatives
PACID_05430	COG1609	Transcriptional regulator
PACID_05460	COG1309	transcriptional regulator
PACID_05470	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
PACID_05520	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
PACID_05530	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
PACID_05540	COG2186	Transcriptional regulator
PACID_05580	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
PACID_05590	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
PACID_05600	COG1301	dicarboxylic acid transport
PACID_05610	COG1953	Uracil, thiamine, allantoin
PACID_05630	COG0393	Putative heavy-metal-binding
PACID_05640	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
PACID_05680	COG0515	serine threonine protein kinase
PACID_05690	COG0768	penicillin binding
PACID_05720	COG1716	ATPase activity
PACID_05730	COG1716	ATPase activity
PACID_05760	COG1088	dTDP-glucose 4,6-dehydratase activity
PACID_05770	COG1209	Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis
PACID_05800	COG0604	alcohol dehydrogenase
PACID_05830	COG1316	TRANSCRIPTIONal
PACID_05890	COG0477	Major facilitator Superfamily
PACID_05900	COG1695	Transcriptional regulator
PACID_05910	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
PACID_05930	COG1113	amino acid transport
PACID_05950	COG1309	transcriptional regulator
PACID_05960	COG1131	(ABC) transporter
PACID_06040	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
PACID_06050	COG0353	May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO
PACID_06100	COG0577	efflux transmembrane transporter activity
PACID_06100	COG1136	(ABC) transporter
PACID_06130	COG0561	phosphatase activity
PACID_06140	COG0561	phosphatase activity
PACID_06150	COG0060	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)
PACID_06220	COG2801	Transposase and inactivated derivatives
PACID_06240	COG0861	Integral membrane protein TerC family
PACID_06250	COG2814	Major facilitator Superfamily
PACID_06260	COG0583	DNA-binding transcription factor activity
PACID_06300	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
PACID_06310	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
PACID_06340	COG0667	Aldo Keto reductase
PACID_06380	COG1881	PFAM PEBP family protein
PACID_06400	COG4581	dead DEAH box helicase
PACID_06420	COG0166	Belongs to the GPI family
PACID_06450	COG2814	Major facilitator Superfamily
PACID_06460	COG0656	L-ascorbic acid biosynthetic process
PACID_06470	COG0018	arginyl-trna synthetase
PACID_06520	COG2814	Major facilitator Superfamily
PACID_06550	COG1012	belongs to the aldehyde dehydrogenase family
PACID_06570	COG1070	Carbohydrate kinase
PACID_06580	COG4952	isomerase
PACID_06590	COG2814	Major facilitator Superfamily
PACID_06610	COG1609	Transcriptional regulator
PACID_06690	COG1609	Transcriptional regulator
PACID_06720	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PACID_06740	COG1027	Aspartate ammonia-lyase
PACID_06800	COG0477	Major facilitator Superfamily
PACID_06810	COG1309	transcriptional regulator
PACID_06830	COG0154	amidase activity
PACID_06840	COG4608	Belongs to the ABC transporter superfamily
PACID_06870	COG1131	(ABC) transporter
PACID_06880	COG1309	transcriptional regulator
PACID_06910	COG1653	transport
PACID_06960	COG0676	glucose-6-phosphate 1-epimerase activity
PACID_06970	COG3830	Belongs to the UPF0237 family
PACID_06970	COG0560	Phosphoserine phosphatase
PACID_06980	COG2813	Specifically methylates the guanine in position
PACID_06990	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
PACID_07000	COG0574	Belongs to the PEP-utilizing enzyme family
PACID_07000	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)
PACID_07040	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
PACID_07050	COG2205	protein histidine kinase activity
PACID_07060	COG0745	RESPONSE REGULATOR receiver
PACID_07100	COG0576	Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ
PACID_07110	COG0484	heat shock protein binding
PACID_07120	COG0789	Transcriptional regulator
PACID_07130	COG1063	alcohol dehydrogenase
PACID_07140	COG3527	Alpha-acetolactate decarboxylase
PACID_07150	COG2985	domain, Protein
PACID_07150	COG0569	domain protein
PACID_07160	COG1113	amino acid transport
PACID_07190	COG1136	(ABC) transporter
PACID_07190	COG4591	ABC-type transport system involved in lipoprotein release permease component
PACID_07230	COG2197	response regulator
PACID_07240	COG4585	Histidine kinase
PACID_07280	COG3588	fructose-bisphosphate aldolase
PACID_07290	COG1609	Transcriptional regulator
PACID_07310	COG2190	(PTS) system
PACID_07310	COG2211	Major facilitator Superfamily
PACID_07340	COG0395	ABC-type sugar transport system, permease component
PACID_07360	COG0542	response to heat
PACID_07370	COG0395	ABC-type sugar transport system, permease component
PACID_07380	COG1175	transmembrane transport
PACID_07400	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
PACID_07420	COG1486	melibiose metabolic process
PACID_07450	COG1511	domain protein
PACID_07470	COG1309	transcriptional regulator
PACID_07480	COG0702	epimerase
PACID_07530	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
PACID_07550	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
PACID_07610	COG3012	SEC-C Motif Domain Protein
PACID_07620	COG4175	Glycine betaine
PACID_07620	COG0517	IMP dehydrogenase activity
PACID_07630	COG4176	ABC-type proline glycine betaine transport system permease component
PACID_07660	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PACID_07670	COG1131	(ABC) transporter
PACID_07700	COG1174	glycine betaine transport
PACID_07720	COG1174	glycine betaine transport
PACID_07750	COG0436	Aminotransferase
PACID_07790	COG1704	LemA family
PACID_07800	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
PACID_07800	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
PACID_07840	COG0438	transferase activity, transferring glycosyl groups
PACID_07860	COG0438	transferase activity, transferring glycosyl groups
PACID_07880	COG2244	polysaccharide biosynthetic process
PACID_07890	COG0489	protein tyrosine kinase activity
PACID_07930	COG0586	Pfam SNARE associated Golgi protein
PACID_07960	COG0191	fructose-bisphosphate aldolase activity
PACID_08020	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)
PACID_08030	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
PACID_08040	COG0588	phosphoglycerate mutase activity
PACID_08050	COG0704	Plays a role in the regulation of phosphate uptake
PACID_08060	COG5002	protein histidine kinase activity
PACID_08090	COG2801	Transposase and inactivated derivatives
PACID_08100	COG1329	Transcriptional regulator
PACID_08110	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
PACID_08130	COG3775	system Galactitol-specific IIC component
PACID_08150	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
PACID_08190	COG3732	PTS system glucitol sorbitol-specific
PACID_08230	COG1063	alcohol dehydrogenase
PACID_08240	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
PACID_08290	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
PACID_08300	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
PACID_08340	COG0112	Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF- independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism
PACID_08380	COG2814	Major facilitator Superfamily
PACID_08400	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
PACID_08410	COG0215	cysteine-tRNA ligase activity
PACID_08440	COG0626	cystathionine gamma-synthase activity
PACID_08530	COG3842	ATPase activity
PACID_08580	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
PACID_08600	COG1760	l-serine dehydratase
PACID_08610	COG1940	carbohydrate kinase activity
PACID_08620	COG1653	transport
PACID_08630	COG1175	transmembrane transport
PACID_08640	COG0395	ABC-type sugar transport system, permease component
PACID_08650	COG1063	alcohol dehydrogenase
PACID_08660	COG0156	8-amino-7-oxononanoate synthase activity
PACID_08680	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
PACID_08690	COG1131	(ABC) transporter
PACID_08710	COG4585	Histidine kinase
PACID_08720	COG2197	response regulator
PACID_08740	COG0406	alpha-ribazole phosphatase activity
PACID_08770	COG4585	Histidine kinase
PACID_08790	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
PACID_08800	COG1492	cobalamin metabolic process
PACID_08840	COG1648	precorrin-2 dehydrogenase activity
PACID_08840	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PACID_08870	COG0310	cobalt ion transport
PACID_08920	COG2109	Required for both de novo synthesis of the corrin ring for the assimilation of exogenous corrinoids. Participates in the adenosylation of a variety of incomplete and complete corrinoids
PACID_08930	COG1797	cobyrinic acid a,c-diamide synthase activity
PACID_08940	COG1648	precorrin-2 dehydrogenase activity
PACID_08940	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PACID_08960	COG2038	nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity
PACID_09020	COG1854	S-ribosylhomocysteine lyase activity
PACID_09040	COG1482	cell wall glycoprotein biosynthetic process
PACID_09060	COG0459	protein refolding
PACID_09160	COG0363	glucosamine-6-phosphate deaminase activity
PACID_09170	COG1278	Cold shock
PACID_09200	COG2252	PERMEase
PACID_09260	COG1321	iron dependent repressor
PACID_09270	COG2226	methyltransferase
PACID_09280	COG3118	belongs to the thioredoxin family
PACID_09290	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
PACID_09300	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
PACID_09320	COG3718	enzyme involved in inositol metabolism
PACID_09330	COG3962	Belongs to the TPP enzyme family
PACID_09360	COG0673	inositol 2-dehydrogenase activity
PACID_09370	COG2814	Major facilitator Superfamily
PACID_09380	COG0673	inositol 2-dehydrogenase activity
PACID_09420	COG1970	mechanosensitive ion channel activity
PACID_09450	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
PACID_09570	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
PACID_09620	COG1053	succinate dehydrogenase
PACID_09630	COG1309	transcriptional regulator
PACID_09680	COG0789	Transcriptional regulator
PACID_09700	COG0693	protein deglycase activity
PACID_09810	COG1540	5-oxoprolinase (ATP-hydrolyzing) activity
PACID_09820	COG2049	5-oxoprolinase (ATP-hydrolyzing) activity
PACID_09840	COG2233	PERMEase
PACID_09870	COG0084	hydrolase, TatD family'
PACID_09880	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
PACID_09890	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
PACID_09900	COG1846	Transcriptional regulator
PACID_09910	COG1309	transcriptional regulator
PACID_09930	COG1207	Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP- GlcNAc). The C-terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N-acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5- monophosphate (from uridine 5-triphosphate), a reaction catalyzed by the N-terminal domain
PACID_09940	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)
PACID_09950	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
PACID_09960	COG0193	aminoacyl-tRNA hydrolase activity
PACID_10000	COG0148	phosphopyruvate hydratase activity
PACID_10060	COG2837	iron assimilation
PACID_10070	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
PACID_10170	COG0290	IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins
PACID_10180	COG0291	Belongs to the bacterial ribosomal protein bL35 family
PACID_10190	COG0292	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit
PACID_10200	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
PACID_10220	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
PACID_10230	COG0072	phenylalanine-tRNA ligase activity
PACID_10230	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PACID_10240	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
PACID_10270	COG0162	Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction tyrosine is first activated by ATP to form Tyr- AMP and then transferred to the acceptor end of tRNA(Tyr)
PACID_10350	COG0225	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
PACID_10360	COG0692	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
PACID_10390	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
PACID_10420	COG1331	Highly conserved protein containing a thioredoxin domain
PACID_10430	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
PACID_10450	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
PACID_10470	COG1722	exodeoxyribonuclease VII activity
PACID_10480	COG1570	exodeoxyribonuclease VII activity
PACID_10490	COG1322	Protein conserved in bacteria
PACID_10500	COG1362	aminopeptidase activity
PACID_10510	COG1136	(ABC) transporter
PACID_10510	COG0577	efflux transmembrane transporter activity
PACID_10540	COG0012	GTP binding
PACID_10550	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
PACID_10570	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
PACID_10690	COG3549	Plasmid maintenance system killer
PACID_10740	COG3559	Exporter of polyketide antibiotics
PACID_10750	COG1131	(ABC) transporter
PACID_10760	COG3549	Plasmid maintenance system killer
PACID_10910	COG1397	ADP-ribosylglycohydrolase
PACID_10940	COG1132	(ABC) transporter
PACID_10950	COG0588	phosphoglycerate mutase activity
PACID_10990	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
PACID_11040	COG3321	synthase
PACID_11040	COG0604	alcohol dehydrogenase
PACID_11040	COG1028	Short-chain dehydrogenase reductase Sdr
PACID_11050	COG0477	Major facilitator Superfamily
PACID_11060	COG0477	Major facilitator Superfamily
PACID_11110	COG2716	regulation of RNA biosynthetic process
PACID_11120	COG2133	pyrroloquinoline quinone binding
PACID_11150	COG0833	amino acid
PACID_11230	COG2501	S4 domain
PACID_11270	COG0765	amino acid transport
PACID_11330	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PACID_11340	COG1121	(ABC) transporter
PACID_11380	COG1012	belongs to the aldehyde dehydrogenase family
PACID_11390	COG1063	alcohol dehydrogenase
PACID_11400	COG2376	Dihydroxyacetone kinase
PACID_11410	COG2236	Acts on guanine, xanthine and to a lesser extent hypoxanthine
PACID_11420	COG1349	DNA-binding transcription factor activity
PACID_11430	COG0698	ribose 5-phosphate isomerase
PACID_11450	COG0647	UMP catabolic process
PACID_11470	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
PACID_11550	COG2814	Major facilitator Superfamily
PACID_11560	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
PACID_11570	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
PACID_11580	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
PACID_11590	COG2720	vancomycin resistance protein
PACID_11640	COG2171	N-acyltransferase activity
PACID_11660	COG1611	Belongs to the LOG family
PACID_11690	COG0297	glycogen (starch) synthase activity
PACID_11700	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
PACID_11740	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
PACID_11750	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
PACID_11820	COG0006	proline dipeptidase activity
PACID_11860	COG0815	Transfers the fatty acyl group on membrane lipoproteins
PACID_11870	COG0531	amino acid
PACID_11900	COG0598	Magnesium transport protein CorA
PACID_11950	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
PACID_11970	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
PACID_11990	COG3093	addiction module antidote protein HigA
PACID_12010	COG0174	glutamine synthetase
PACID_12050	COG0586	Pfam SNARE associated Golgi protein
PACID_12060	COG2239	Acts as a magnesium transporter
PACID_12070	COG0488	(ABC) transporter
PACID_12090	COG0320	Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives
PACID_12120	COG0321	lipoyl(octanoyl) transferase activity
PACID_12130	COG0508	dehydrogenase complex catalyzes the overall conversion of
PACID_12210	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
PACID_12260	COG1290	Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis
PACID_12270	COG0723	plastoquinol--plastocyanin reductase activity
PACID_12280	COG2010	Cytochrome c
PACID_12290	COG1845	cytochrome c oxidase, subunit III
PACID_12310	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
PACID_12390	COG2801	Transposase and inactivated derivatives
PACID_12410	COG1940	carbohydrate kinase activity
PACID_12450	COG2197	response regulator
PACID_12460	COG3200	phospho-2-dehydro-3-deoxyheptonate aldolase
PACID_12490	COG2815	serine threonine protein kinase
PACID_12490	COG0515	serine threonine protein kinase
PACID_12510	COG0352	thiamine-phosphate diphosphorylase activity
PACID_12530	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
PACID_12540	COG0210	DNA helicase
PACID_12590	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
PACID_12590	COG1116	anion transmembrane transporter activity
PACID_12600	COG0596	Alpha beta hydrolase
PACID_12620	COG1023	phosphogluconate dehydrogenase (decarboxylating) activity
PACID_12640	COG3265	gluconokinase activity
PACID_12680	COG1131	(ABC) transporter
PACID_12690	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
PACID_12690	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
PACID_12700	COG0509	glycine decarboxylation via glycine cleavage system
PACID_12710	COG0404	The glycine cleavage system catalyzes the degradation of glycine
PACID_12750	COG0714	Associated with various cellular activities
PACID_12760	COG2001	Belongs to the MraZ family
PACID_12770	COG0275	rRNA processing
PACID_12790	COG0768	penicillin binding
PACID_12810	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
PACID_12820	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
PACID_12830	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
PACID_12840	COG0772	Belongs to the SEDS family
PACID_12850	COG0707	Cell wall formation. Catalyzes the transfer of a GlcNAc subunit on undecaprenyl-pyrophosphoryl-MurNAc-pentapeptide (lipid intermediate I) to form undecaprenyl-pyrophosphoryl-MurNAc- (pentapeptide)GlcNAc (lipid intermediate II)
PACID_12860	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
PACID_12870	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
PACID_12880	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
PACID_12900	COG1799	cell septum assembly
PACID_12930	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
PACID_12960	COG0469	pyruvate kinase activity
PACID_12990	COG2050	protein possibly involved in aromatic compounds catabolism
PACID_13040	COG0539	negative regulation of cytoplasmic translation
PACID_13050	COG0237	dephospho-CoA kinase activity
PACID_13080	COG0556	nucleotide-excision repair
PACID_13110	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
PACID_13150	COG0322	excinuclease ABC activity
PACID_13160	COG1660	Displays ATPase and GTPase activities
PACID_13170	COG0391	Required for morphogenesis under gluconeogenic growth conditions
PACID_13180	COG1481	regulation of sporulation
PACID_13190	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
PACID_13200	COG0126	phosphoglycerate kinase activity
PACID_13210	COG0149	triose-phosphate isomerase activity
PACID_13220	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
PACID_13240	COG0285	dihydrofolate synthase activity
PACID_13260	COG0105	UTP biosynthetic process
PACID_13280	COG1472	Belongs to the glycosyl hydrolase 3 family
PACID_13300	COG1530	ribonuclease E activity
PACID_13310	COG0261	This protein binds to 23S rRNA in the presence of protein L20
PACID_13320	COG0211	Belongs to the bacterial ribosomal protein bL27 family
PACID_13340	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
PACID_13350	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
PACID_13360	COG0014	Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate
PACID_13380	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
PACID_13470	COG1280	lysine exporter protein (LysE YggA)
PACID_13560	COG0488	(ABC) transporter
PACID_13720	COG0590	tRNA wobble adenosine to inosine editing
PACID_13740	COG2761	dithiol-disulfide isomerase involved in polyketide biosynthesis
PACID_13770	COG0495	leucyl-tRNA aminoacylation
PACID_13790	COG0658	competence protein
PACID_13790	COG2333	competence protein COMEC
PACID_13800	COG1061	Type III restriction enzyme res subunit
PACID_13820	COG0268	Binds directly to 16S ribosomal RNA
PACID_13840	COG0481	GTPase activity
PACID_13880	COG4948	Mandelate Racemase Muconate Lactonizing
PACID_13890	COG1165	Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate (SEPHCHC)
PACID_13900	COG1169	isochorismate synthase
PACID_13920	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
PACID_13940	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
PACID_13950	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
PACID_13970	COG1131	(ABC) transporter
PACID_13980	COG1309	transcriptional regulator
PACID_13990	COG0477	Major facilitator Superfamily
PACID_14010	COG0395	ABC-type sugar transport system, permease component
PACID_14020	COG1175	transmembrane transport
PACID_14060	COG0483	inositol monophosphate 1-phosphatase activity
PACID_14090	COG1420	regulation of RNA biosynthetic process
PACID_14100	COG0484	heat shock protein binding
PACID_14120	COG1063	alcohol dehydrogenase
PACID_14130	COG2213	PTS system mannitol-specific
PACID_14130	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
PACID_14160	COG1207	Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP- GlcNAc). The C-terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N-acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5- monophosphate (from uridine 5-triphosphate), a reaction catalyzed by the N-terminal domain
PACID_14170	COG5006	permease, DMT superfamily
PACID_14180	COG0343	queuine tRNA-ribosyltransferase activity
PACID_14200	COG2197	response regulator
PACID_14210	COG4152	abc transporter atp-binding protein
PACID_14290	COG2226	methyltransferase
PACID_14330	COG0319	Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA
PACID_14350	COG1159	An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism
PACID_14380	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
PACID_14390	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
PACID_14400	COG0765	amino acid transport
PACID_14410	COG0765	amino acid transport
PACID_14430	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
PACID_14450	COG1404	Belongs to the peptidase S8 family
PACID_14460	COG1381	Involved in DNA repair and RecF pathway recombination
PACID_14480	COG4716	Myosin-crossreactive antigen
PACID_14490	COG0667	Aldo Keto reductase
PACID_14540	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
PACID_14780	COG1388	LysM domain
PACID_14780	COG3942	CHAP domain
PACID_14840	COG3177	Filamentation induced by cAMP protein fic
PACID_14850	COG2801	Transposase and inactivated derivatives
PACID_14890	COG0714	Associated with various cellular activities
PACID_14910	COG2304	oxidoreductase activity
PACID_14960	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
PACID_14970	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
PACID_14990	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
PACID_15020	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
PACID_15040	COG0667	Aldo Keto reductase
PACID_15060	COG2065	Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant
PACID_15070	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
PACID_15080	COG0505	Belongs to the CarA family
PACID_15090	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
PACID_15100	COG0543	2 iron, 2 sulfur cluster binding
PACID_15110	COG0167	dihydroorotate dehydrogenase activity
PACID_15120	COG0284	orotidine-5'-phosphate decarboxylase activity
PACID_15130	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
PACID_15190	COG0621	Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine
PACID_15210	COG1546	Belongs to the CinA family
PACID_15210	COG1058	Belongs to the CinA family
PACID_15230	COG1349	DNA-binding transcription factor activity
PACID_15270	COG1418	mRNA catabolic process
PACID_15280	COG2017	converts alpha-aldose to the beta-anomer
PACID_15290	COG0621	Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine
PACID_15940	COG0324	Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A)
PACID_15950	COG0253	Catalyzes the stereoinversion of LL-2,6- diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso- DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan
PACID_15960	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
PACID_16000	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
PACID_16010	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
PACID_16020	COG0717	Belongs to the dCTP deaminase family
PACID_16060	COG1643	Atp-dependent helicase
PACID_16080	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
PACID_16110	COG0187	DNA topoisomerase II activity
PACID_16150	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
PACID_16180	COG1297	OPT oligopeptide transporter protein
PACID_16250	COG0756	dUTP diphosphatase activity
PACID_16290	COG0569	domain protein
PACID_16300	COG0531	amino acid
PACID_16310	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
PACID_16330	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
PACID_16340	COG1154	Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP)
PACID_16370	COG0229	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
PACID_16380	COG2326	polyphosphate kinase activity
PACID_16440	COG0726	polysaccharide deacetylase
PACID_16510	COG1064	alcohol dehydrogenase
PACID_16520	COG0441	Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
PACID_16550	COG1560	Kdo2-lipid A biosynthetic process
PACID_16560	COG0438	transferase activity, transferring glycosyl groups
PACID_16620	COG1716	ATPase activity
PACID_16660	COG1295	ribonuclease BN
PACID_16670	COG0205	6-phosphofructokinase activity
PACID_16690	COG0009	L-threonylcarbamoyladenylate synthase
PACID_16700	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
PACID_16730	COG1739	Uncharacterized protein family UPF0029
PACID_16760	COG0443	Heat shock 70 kDa protein
PACID_16830	COG0531	amino acid
PACID_16880	COG1966	Carbon starvation protein
PACID_16910	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
PACID_16920	COG2240	Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP
PACID_16950	COG1216	Glycosyl transferase, family 2
PACID_16960	COG0815	Transfers the fatty acyl group on membrane lipoproteins
PACID_16970	COG1522	sequence-specific DNA binding
PACID_16980	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
PACID_16980	COG2813	Specifically methylates the guanine in position
PACID_16990	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
PACID_17000	COG0427	acetyl-CoA hydrolase
PACID_17070	COG2801	Transposase and inactivated derivatives
PACID_17110	COG3550	peptidyl-serine autophosphorylation
PACID_17190	COG3226	Transcriptional regulator
PACID_17230	COG0277	FAD linked oxidase domain protein
PACID_17250	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PACID_17290	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PACID_17310	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
PACID_17380	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
PACID_17450	COG1764	response to oxidative stress
PACID_17470	COG1160	GTP binding
PACID_17480	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
PACID_17500	COG0638	Catalyzes the covalent attachment of the prokaryotic ubiquitin-like protein modifier Pup to the proteasomal substrate proteins, thereby targeting them for proteasomal degradation. This tagging system is termed pupylation. The ligation reaction involves the side-chain carboxylate of the C-terminal glutamate of Pup and the side-chain amino group of a substrate lysine
PACID_17510	COG0638	Catalyzes the covalent attachment of the prokaryotic ubiquitin-like protein modifier Pup to the proteasomal substrate proteins, thereby targeting them for proteasomal degradation. This tagging system is termed pupylation. The ligation reaction involves the side-chain carboxylate of the C-terminal glutamate of Pup and the side-chain amino group of a substrate lysine
PACID_17540	COG1410	methionine synthase
PACID_17540	COG0646	methionine synthase
PACID_17560	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
PACID_17580	COG0223	Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus
PACID_17640	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
PACID_17650	COG1201	RNA secondary structure unwinding
PACID_17660	COG0192	Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme
PACID_17680	COG1758	RNA polymerase activity
PACID_17690	COG0194	GDP metabolic process
PACID_17710	COG0781	Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons
PACID_17720	COG0231	Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase
PACID_17740	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
PACID_17750	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
PACID_17760	COG0082	Catalyzes the anti-1,4-elimination of the C-3 phosphate and the C-6 proR hydrogen from 5-enolpyruvylshikimate-3-phosphate (EPSP) to yield chorismate, which is the branch point compound that serves as the starting substrate for the three terminal pathways of aromatic amino acid biosynthesis. This reaction introduces a second double bond into the aromatic ring system
PACID_17770	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)
PACID_17780	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
PACID_17790	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
PACID_17800	COG0013	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain
PACID_17870	COG0173	Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp Asn)
PACID_17900	COG1309	transcriptional regulator
PACID_17920	COG0124	histidyl-tRNA synthetase
PACID_17930	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
PACID_17940	COG1196	nuclear chromosome segregation
PACID_17950	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
PACID_17960	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
PACID_17980	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
PACID_17990	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
PACID_18000	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
PACID_18020	COG2255	four-way junction helicase activity
PACID_18030	COG0632	four-way junction helicase activity
PACID_18040	COG0817	Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group
PACID_18050	COG0217	transcriptional regulatory protein
PACID_18060	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
PACID_18070	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
PACID_18080	COG0131	Imidazoleglycerol-phosphate dehydratase
PACID_18090	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
PACID_18100	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
PACID_18170	COG0395	ABC-type sugar transport system, permease component
PACID_18210	COG0070	glutamate synthase
PACID_18210	COG0067	glutamate synthase
PACID_18210	COG0069	glutamate synthase activity
PACID_18220	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
PACID_18230	COG0159	tryptophan synthase activity
PACID_18250	COG0134	indole-3-glycerol-phosphate synthase activity
PACID_18280	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
PACID_18290	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
PACID_18320	COG0735	belongs to the Fur family
PACID_18340	COG0423	glycine-tRNA ligase activity
PACID_18360	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
PACID_18370	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
PACID_18390	COG0076	glutamate decarboxylase activity
PACID_18410	COG1053	succinate dehydrogenase
PACID_18500	COG0232	Belongs to the dGTPase family. Type 2 subfamily
PACID_18510	COG0358	DNA primase activity
PACID_18520	COG1191	sigma factor activity
PACID_18560	COG0380	Probably involved in the osmoprotection via the biosynthesis of trehalose. Catalyzes the transfer of glucose from UDP-glucose (UDP-Glc) to D-glucose 6-phosphate (Glc-6-P) to form trehalose-6-phosphate. Acts with retention of the anomeric configuration of the UDP-sugar donor
PACID_18600	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PACID_18620	COG0311	Catalyzes the hydrolysis of glutamine to glutamate and ammonia as part of the biosynthesis of pyridoxal 5'-phosphate. The resulting ammonia molecule is channeled to the active site of PdxS
PACID_18640	COG0583	DNA-binding transcription factor activity
PACID_18660	COG0515	serine threonine protein kinase
PACID_18670	COG1309	transcriptional regulator
PACID_18680	COG0477	Major facilitator Superfamily
PACID_18710	COG4974	Belongs to the 'phage' integrase family
PACID_18740	COG1192	Involved in chromosome partitioning
PACID_18830	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
PACID_18980	COG0064	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
PACID_18990	COG0154	amidase activity
PACID_19000	COG0721	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
PACID_19030	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
PACID_19050	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
PACID_19080	COG0482	sulfurtransferase activity
PACID_19140	COG0366	Alpha amylase catalytic
PACID_19150	COG3281	Trehalose synthase
PACID_19160	COG0296	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position
PACID_19200	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
PACID_19220	COG0033	Phosphoglucomutase
PACID_19340	COG0355	proton-transporting ATP synthase activity, rotational mechanism
PACID_19350	COG0055	Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits
PACID_19360	COG0224	Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is believed to be important in regulating ATPase activity and the flow of protons through the CF(0) complex
PACID_19370	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
PACID_19380	COG0712	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
PACID_19390	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
PACID_19400	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
PACID_19410	COG0356	it plays a direct role in the translocation of protons across the membrane
PACID_19440	COG1045	serine acetyltransferase
PACID_19460	COG0367	asparagine synthase
PACID_19470	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
PACID_19490	COG0318	PFAM AMP-dependent synthetase and ligase
PACID_19630	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
PACID_19650	COG2890	protein-(glutamine-N5) methyltransferase activity
PACID_19660	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
PACID_19670	COG0254	rRNA binding
PACID_19690	COG0083	homoserine kinase activity
PACID_19700	COG0460	homoserine dehydrogenase
PACID_19720	COG0019	diaminopimelate decarboxylase activity
PACID_19740	COG1611	Belongs to the LOG family
PACID_19760	COG0567	Dehydrogenase, E1 component
PACID_19760	COG0508	dehydrogenase complex catalyzes the overall conversion of
PACID_19830	COG1595	DNA-templated transcription, initiation
PACID_19850	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
PACID_19860	COG1162	GTPase activity
PACID_19880	COG0483	inositol monophosphate 1-phosphatase activity
PACID_19890	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
PACID_19930	COG0747	negative chemotaxis
PACID_19980	COG1615	UPF0182 protein
PACID_20000	COG3480	Lon protease (S16) C-terminal proteolytic domain
PACID_20050	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
PACID_20060	COG1074	ATP-dependent DNA helicase activity
PACID_20070	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
PACID_20090	COG0210	DNA helicase
PACID_20100	COG1278	Cold shock
PACID_20150	COG0180	Tryptophanyl-tRNA synthetase
PACID_20170	COG0613	PHP domain protein
PACID_20210	COG0653	protein targeting
PACID_20230	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
PACID_20260	COG5002	protein histidine kinase activity
PACID_20270	COG0745	RESPONSE REGULATOR receiver
PACID_20280	COG1678	Uncharacterized ACR, COG1678
PACID_20300	COG0165	Argininosuccinate lyase
PACID_20310	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
PACID_20320	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PACID_20330	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
PACID_20350	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
PACID_20360	COG0691	Required for rescue of stalled ribosomes mediated by trans-translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene
PACID_20370	COG2177	Part of the ABC transporter FtsEX involved in
PACID_20380	COG2884	Cell division ATP-binding protein ftsE
PACID_20390	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
PACID_20420	COG3152	Membrane
PACID_20440	COG1674	ftsk spoiiie
PACID_20480	COG1181	Belongs to the D-alanine--D-alanine ligase family
PACID_20500	COG0066	3-isopropylmalate dehydratase activity
PACID_20510	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
PACID_20520	COG1414	Transcriptional regulator
PACID_20560	COG0179	Fumarylacetoacetate (FAA) hydrolase
PACID_20580	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
PACID_20590	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
PACID_20600	COG0473	3-isopropylmalate dehydrogenase activity
PACID_20640	COG0059	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate
PACID_20650	COG0440	acetolactate synthase activity
PACID_20680	COG0537	adenosine 5'-monophosphoramidase activity
PACID_20690	COG0107	imidazoleglycerol-phosphate synthase activity
PACID_20730	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
PACID_20770	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)
PACID_20840	COG0504	CTP synthase activity
PACID_20850	COG0497	DNA recombination
PACID_20860	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
PACID_20890	COG1122	ATPase activity
PACID_20900	COG1268	BioY protein
PACID_20910	COG0647	UMP catabolic process
PACID_20980	COG0040	Catalyzes the condensation of ATP and 5-phosphoribose 1- diphosphate to form N'-(5'-phosphoribosyl)-ATP (PR-ATP). Has a crucial role in the pathway because the rate of histidine biosynthesis seems to be controlled primarily by regulation of hisG enzymatic activity
PACID_20990	COG0140	phosphoribosyl-ATP diphosphatase activity
PACID_21000	COG3201	nicotinamide mononucleotide transporter
PACID_21020	COG0667	Aldo Keto reductase
PACID_21040	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
PACID_21050	COG2801	Transposase and inactivated derivatives
PACID_21090	COG1609	Transcriptional regulator
PACID_21100	COG2160	L-arabinose isomerase activity
PACID_21180	COG1609	Transcriptional regulator
PACID_21190	COG0395	ABC-type sugar transport system, permease component
PACID_21200	COG1175	transmembrane transport
PACID_21250	COG0606	chelatase, subunit chli
PACID_21260	COG0792	nuclease activity
PACID_21280	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
PACID_21290	COG0681	Belongs to the peptidase S26 family
PACID_21300	COG0335	large ribosomal subunit rRNA binding
PACID_21310	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
PACID_21320	COG1053	succinate dehydrogenase
PACID_21340	COG0336	Belongs to the RNA methyltransferase TrmD family
PACID_21350	COG0806	An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes
PACID_21360	COG1837	Belongs to the UPF0109 family
PACID_21370	COG0228	four-way junction DNA binding
PACID_21520	COG0656	L-ascorbic acid biosynthetic process
PACID_21530	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
PACID_21540	COG0571	ribonuclease III activity
PACID_21550	COG0333	Belongs to the bacterial ribosomal protein bL32 family
PACID_21570	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
PACID_21580	COG0742	ribosomal rna small subunit methyltransferase
PACID_21620	COG0227	Belongs to the bacterial ribosomal protein bL28 family
PACID_21630	COG0595	An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and or decay
PACID_21650	COG0028	Belongs to the TPP enzyme family
PACID_21670	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
PACID_21680	COG1185	polyribonucleotide nucleotidyltransferase activity
PACID_21690	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
PACID_21730	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
PACID_21770	COG3732	PTS system glucitol sorbitol-specific
PACID_21800	COG0371	Dehydrogenase
PACID_21810	COG0858	One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Required for efficient processing of 16S rRNA. May interact with the 5'-terminal helix region of 16S rRNA
PACID_21830	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
PACID_21860	COG0779	Required for maturation of 30S ribosomal subunits
PACID_21900	COG0442	prolyl-tRNA aminoacylation
PACID_21920	COG1305	Transglutaminase-like
PACID_21980	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
PACID_21990	COG0750	zinc metalloprotease
PACID_22010	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
PACID_22020	COG0820	rRNA (adenine-C2-)-methyltransferase activity
PACID_22030	COG0575	Belongs to the CDS family
PACID_22040	COG0233	cytoplasmic translational termination
PACID_22050	COG0528	UMP kinase activity
PACID_22060	COG0264	Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome
PACID_22070	COG0052	Belongs to the universal ribosomal protein uS2 family
PACID_22080	COG2801	Transposase and inactivated derivatives
PACID_22100	COG0714	Associated with various cellular activities
PACID_22110	COG2425	protein containing a von Willebrand factor type A (vWA) domain
PACID_22120	COG3552	Protein containing von Willebrand factor type A (VWA) domain
PACID_22150	COG4974	Belongs to the 'phage' integrase family
PACID_22170	COG0242	peptide deformylase activity
PACID_22250	COG1119	ATPase activity
PACID_22270	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
PACID_22370	COG0488	(ABC) transporter
PACID_22470	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
PACID_22480	COG0396	ATPase activity
PACID_22510	COG0719	Fe-S assembly protein
PACID_22530	COG2801	Transposase and inactivated derivatives
PACID_22560	COG1175	transmembrane transport
PACID_22570	COG3833	ABC-type maltose transport systems, permease component
PACID_22600	COG1609	Transcriptional regulator
PACID_22620	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
PACID_22630	COG1131	(ABC) transporter
PACID_22650	COG1612	heme a metabolic process
PACID_22660	COG0109	protoheme IX farnesyltransferase activity
PACID_22690	COG0363	glucosamine-6-phosphate deaminase activity
PACID_22710	COG0525	valine-tRNA ligase activity
PACID_22740	COG0793	Belongs to the peptidase S41A family
PACID_22740	COG4946	Tricorn protease homolog
PACID_22760	COG1219	ATP-dependent specificity component of the Clp protease. It directs the protease to specific substrates. Can perform chaperone functions in the absence of ClpP
PACID_22770	COG0740	serine-type endopeptidase activity
PACID_22780	COG0740	serine-type endopeptidase activity
PACID_22800	COG0544	peptidyl-prolyl cis-trans isomerase activity
PACID_23030	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
PACID_23030	COG2898	Catalyzes the transfer of a lysyl group from L-lysyl- tRNA(Lys) to membrane-bound phosphatidylglycerol (PG), which produces lysylphosphatidylglycerol (LPG), a major component of the bacterial membrane with a positive net charge. LPG synthesis contributes to bacterial virulence as it is involved in the resistance mechanism against cationic antimicrobial peptides (CAMP) produces by the host's immune system (defensins, cathelicidins) and by the competing microorganisms
PACID_23070	COG0698	ribose 5-phosphate isomerase
PACID_23100	COG0272	DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA
PACID_23110	COG2761	dithiol-disulfide isomerase involved in polyketide biosynthesis
PACID_23140	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
PACID_23160	COG2814	Major facilitator Superfamily
PACID_23190	COG1022	Amp-dependent synthetase and ligase
PACID_23220	COG0277	FAD linked oxidase domain protein
PACID_23220	COG0247	lactate metabolic process
PACID_23270	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
PACID_23290	COG4106	trans-aconitate 2-methyltransferase activity
PACID_23310	COG0519	Catalyzes the synthesis of GMP from XMP
PACID_23320	COG1794	racemase activity, acting on amino acids and derivatives
PACID_23370	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
PACID_23450	COG1794	racemase activity, acting on amino acids and derivatives
PACID_23460	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
PACID_23470	COG0384	phenazine biosynthesis protein PhzF
PACID_23480	COG2226	methyltransferase
PACID_23510	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
PACID_23520	COG2197	response regulator
PACID_23530	COG4585	Histidine kinase
PACID_23550	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
PACID_23570	COG1113	amino acid transport
PACID_23600	COG1131	(ABC) transporter
PACID_23640	COG2855	membrane
PACID_23650	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
PACID_23660	COG0531	amino acid
PACID_23680	COG0587	DNA-directed DNA polymerase activity
PACID_23720	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
PACID_23760	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
PACID_23810	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
PACID_23830	COG0207	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis
PACID_23840	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
PACID_23850	COG0689	Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates
PACID_23860	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
PACID_23880	COG1918	ferrous iron import across plasma membrane
PACID_23880	COG0370	Transporter of a GTP-driven Fe(2 ) uptake system
PACID_23910	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
PACID_23980	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
PACID_24090	COG0662	Cupin 2, conserved barrel domain protein
PACID_24090	COG0836	Belongs to the mannose-6-phosphate isomerase type 2 family
PACID_24120	COG1316	TRANSCRIPTIONal
PACID_24160	COG3340	Belongs to the peptidase S51 family
PACID_24180	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
PACID_24200	COG0424	maF-like protein
PACID_24230	COG4221	oxidoreductase activity
PACID_24250	COG0351	phosphomethylpyrimidine kinase
PACID_24270	COG4770	biotin carboxylase activity
PACID_24310	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
PACID_24360	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PACID_24370	COG4656	Part of a membrane complex involved in electron transport
PACID_24380	COG0252	asparaginase activity
PACID_24380	COG5275	peptidyl-tyrosine sulfation
PACID_24400	COG1978	Selenoprotein B, glycine betaine sarcosine D-proline reductase family
PACID_24440	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PACID_24520	COG1253	flavin adenine dinucleotide binding
PACID_24560	COG0039	L-malate dehydrogenase activity
PACID_24600	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
PACID_24620	COG0138	bifunctional purine biosynthesis protein purh
PACID_24640	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
PACID_24650	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
PACID_24650	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
PACID_24710	COG0045	succinate-CoA ligase (ADP-forming) activity
PACID_24760	COG1464	Belongs to the NlpA lipoprotein family
PACID_24770	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
PACID_24780	COG2011	ABC-type metal ion transport system permease component
PACID_24800	COG2261	transglycosylase associated protein
PACID_24810	COG2197	response regulator
PACID_24860	COG0519	Catalyzes the synthesis of GMP from XMP
PACID_24860	COG0518	GMP synthase (glutamine-hydrolyzing) activity
PACID_24870	COG1045	serine acetyltransferase
PACID_24880	COG1605	Chorismate mutase
PACID_24880	COG0287	Prephenate dehydrogenase
PACID_24930	COG0459	protein refolding
PACID_24940	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
PACID_24980	COG1355	regulation of microtubule-based process
PACID_25020	COG0533	Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaE and TsaB. TsaD likely plays a direct catalytic role in this reaction
PACID_25040	COG1214	PFAM Peptidase M22, glycoprotease
PACID_25040	COG0456	acetyltransferase
PACID_25050	COG0802	atpase or kinase
PACID_25060	COG0513	Belongs to the DEAD box helicase family
PACID_25090	COG0736	holo-[acyl-carrier-protein] synthase activity
PACID_25100	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
PACID_25120	COG1072	(Pantothenic acid kinase))
PACID_25140	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
PACID_25160	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
PACID_25170	COG0102	This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly
PACID_25210	COG0220	tRNA (guanine-N7-)-methyltransferase activity
PACID_25220	COG0101	tRNA pseudouridine synthase activity
PACID_25250	COG0619	Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates
PACID_25260	COG3845	ABC transporter
PACID_25290	COG0519	Catalyzes the synthesis of GMP from XMP
PACID_25290	COG0518	GMP synthase (glutamine-hydrolyzing) activity
PACID_25310	COG0438	transferase activity, transferring glycosyl groups
PACID_25320	COG0203	ribosomal protein L17
PACID_25330	COG0202	RNA polymerase activity
PACID_25350	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
PACID_25360	COG0100	Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome
PACID_25370	COG0099	Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits
PACID_25380	COG0257	Belongs to the bacterial ribosomal protein bL36 family
PACID_25390	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
PACID_25430	COG0563	adenylate kinase activity
PACID_25500	COG0200	Binds to the 23S rRNA
PACID_25510	COG1841	ribosomal large subunit assembly
PACID_25520	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
PACID_25530	COG0256	This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance
PACID_25540	COG0097	This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7 L12 stalk, and near the tRNA binding site of the peptidyltransferase center
PACID_25550	COG0096	One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
PACID_25560	COG0199	Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site
PACID_25570	COG0094	This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits
PACID_25580	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
PACID_25590	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
PACID_25600	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
PACID_25610	COG0395	ABC-type sugar transport system, permease component
PACID_25620	COG1175	transmembrane transport
PACID_25670	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
PACID_25680	COG0255	Belongs to the universal ribosomal protein uL29 family
PACID_25690	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
PACID_25700	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
PACID_25710	COG0091	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
PACID_25720	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
PACID_25730	COG0090	One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity
PACID_25740	COG0089	rRNA binding
PACID_25750	COG0088	Forms part of the polypeptide exit tunnel
PACID_25760	COG0087	One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit
PACID_25770	COG0051	transcription antitermination factor activity, RNA binding
PACID_25780	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)
PACID_25800	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)
PACID_25830	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
PACID_25850	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
PACID_25860	COG0049	tRNA binding
PACID_25870	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
PACID_25880	COG0673	inositol 2-dehydrogenase activity
PACID_25910	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
PACID_25920	COG0085	RNA polymerase activity
PACID_25930	COG0222	ribosome binding
PACID_25940	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
PACID_25950	COG0081	regulation of translation
PACID_25960	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
PACID_25970	COG0250	Participates in transcription elongation, termination and antitermination
PACID_26000	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PACID_26010	COG0812	UDP-N-acetylmuramate dehydrogenase activity
PACID_26030	COG2030	dehydratase
PACID_26040	COG0267	Belongs to the bacterial ribosomal protein bL33 family
PACID_26120	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
PACID_26130	COG0649	NAD binding
PACID_26130	COG0852	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
PACID_26140	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
PACID_26150	COG0674	pyruvate-flavodoxin oxidoreductase activity
PACID_26150	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
PACID_26160	COG1013	pyruvate-flavodoxin oxidoreductase activity
PACID_26170	COG3590	peptidase
PACID_26280	COG1007	ATP synthesis coupled electron transport
PACID_26310	COG0713	ATP synthesis coupled electron transport
PACID_26330	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
PACID_26340	COG1005	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient. This subunit may bind ubiquinone
PACID_26350	COG1034	ATP synthesis coupled electron transport
PACID_26360	COG1894	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain
PACID_26380	COG0649	NAD binding
PACID_26390	COG0852	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
PACID_26400	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
PACID_26420	COG0644	oxidoreductase
PACID_26480	COG1131	(ABC) transporter
PACID_26490	COG2226	methyltransferase
PACID_26510	COG1132	(ABC) transporter
PACID_26550	COG2376	Dihydroxyacetone kinase
PACID_26560	COG1461	Dihydroxyacetone kinase
PACID_26570	COG3412	dihydroxyacetone kinase, phosphotransfer subunit
PACID_26570	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)
PACID_26570	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
PACID_26600	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
PACID_26610	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
PACID_26650	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
PACID_26780	COG0574	Belongs to the PEP-utilizing enzyme family
PACID_26780	COG3848	Pyruvate phosphate dikinase
PACID_26810	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
PACID_27070	COG0395	ABC-type sugar transport system, permease component
PACID_27120	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
PACID_27200	COG0046	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
PACID_27230	COG0252	asparaginase activity
PACID_27240	COG1113	amino acid transport
PACID_27260	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
PACID_27270	COG0047	phosphoribosylformylglycinamidine synthase activity
PACID_27280	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
PACID_27290	COG0450	alkyl hydroperoxide reductase
PACID_27300	COG3634	alkyl hydroperoxide reductase activity
PACID_27320	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
PACID_27330	COG0151	Belongs to the GarS family
PACID_27350	COG4423	Transcription factor
PACID_27360	COG3742	Toxic component of a toxin-antitoxin (TA) module. An RNase
PACID_27370	COG0104	Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP
PACID_27400	COG1937	Protein conserved in bacteria
PACID_27410	COG0446	pyridine nucleotide-disulphide oxidoreductase
PACID_27440	COG2337	Toxic component of a toxin-antitoxin (TA) module
PACID_27470	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
PACID_27490	COG3485	protocatechuate 3,4-dioxygenase
PACID_27510	COG1490	D-aminoacyl-tRNA deacylase activity
PACID_27570	COG0745	RESPONSE REGULATOR receiver
PACID_27580	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
PACID_27630	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
PACID_27640	COG0227	Belongs to the bacterial ribosomal protein bL28 family
PACID_27690	COG0254	rRNA binding
PACID_27700	COG0267	Belongs to the bacterial ribosomal protein bL33 family
PACID_27720	COG0523	cobalamin synthesis protein
PACID_27750	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PACID_27760	COG1121	(ABC) transporter
PACID_27780	COG0803	Belongs to the bacterial solute-binding protein 9 family
PACID_27790	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
PACID_27800	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
PACID_27810	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
PACID_27820	COG1120	ATPase activity
PACID_27860	COG0129	dihydroxy-acid dehydratase activity
PACID_27870	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
PACID_27890	COG2409	Drug exporters of the RND superfamily
PACID_27900	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
PACID_27940	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
PACID_27960	COG0785	Cytochrome C biogenesis protein
PACID_27970	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PACID_27980	COG0406	alpha-ribazole phosphatase activity
PACID_27990	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PACID_27990	COG1648	precorrin-2 dehydrogenase activity
PACID_28010	COG2344	Modulates transcription in response to changes in cellular NADH NAD( ) redox state
PACID_28030	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
PACID_28060	COG0506	proline dehydrogenase activity
PACID_28070	COG1082	Xylose isomerase domain protein TIM barrel
PACID_28090	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
PACID_28100	COG1066	DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function
PACID_28110	COG1623	Has also diadenylate cyclase activity, catalyzing the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP). c- di-AMP acts as a signaling molecule that couples DNA integrity with progression of sporulation. The rise in c-di-AMP level generated by DisA while scanning the chromosome, operates as a positive signal that advances sporulation
PACID_28140	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
PACID_28150	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
PACID_28170	COG0181	hydroxymethylbilane synthase activity
PACID_28200	COG0113	porphobilinogen synthase activity
PACID_28210	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
PACID_28220	COG1194	a g-specific adenine glycosylase
PACID_28240	COG3842	ATPase activity
PACID_28260	COG4143	(ABC) transporter
PACID_28270	COG0572	uridine kinase
PACID_28280	COG0705	Rhomboid family
PACID_28400	COG0542	response to heat
PACID_28420	COG0649	NAD binding
PACID_28450	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
PACID_28460	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
PACID_28470	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
PACID_28480	COG0302	gtp cyclohydrolase
PACID_28510	COG0037	tRNA processing
PACID_28530	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
PACID_28550	COG3458	cephalosporin-C deacetylase activity
PACID_28560	COG2062	phosphohistidine phosphatase, SixA
PACID_28650	COG1522	sequence-specific DNA binding
PACID_28660	COG1619	proteins homologs of microcin C7 resistance protein MccF
PACID_28680	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PACID_28690	COG0601	transmembrane transport
PACID_28730	COG0518	GMP synthase (glutamine-hydrolyzing) activity
PACID_28730	COG0519	Catalyzes the synthesis of GMP from XMP
PACID_28740	COG0431	NADPH-dependent FMN reductase
PACID_28750	COG1231	oxidoreductase activity
PACID_28830	COG1774	PSP1 C-terminal conserved region
PACID_28850	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
PACID_28860	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
PACID_28880	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
PACID_28880	COG1754	DNA topoisomerase type I activity
PACID_28900	COG2890	protein-(glutamine-N5) methyltransferase activity
PACID_28920	COG1111	helicase
PACID_28920	COG1205	dead DEAH box helicase
PACID_29100	COG0494	nUDIX hydrolase
PACID_29170	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
PACID_29180	COG1408	metallophosphoesterase
PACID_29220	COG0833	amino acid
PACID_29230	COG2040	homocysteine
PACID_29240	COG1846	Transcriptional regulator
PACID_29310	COG0601	transmembrane transport
PACID_29320	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PACID_29330	COG0444	Belongs to the ABC transporter superfamily
PACID_29340	COG4608	Belongs to the ABC transporter superfamily
PACID_29370	COG3022	response to hydroperoxide
PACID_29400	COG1069	ribulokinase activity
PACID_29410	COG1072	(Pantothenic acid kinase))
PACID_29440	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
PACID_29460	COG0534	Mate efflux family protein
PACID_29470	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
PACID_29540	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
PACID_29540	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
PACID_29560	COG2197	response regulator
PACID_29610	COG3285	dna ligase
PACID_29610	COG1793	dna ligase
PACID_29620	COG2124	cytochrome p450
PACID_29630	COG1028	Short-chain dehydrogenase reductase Sdr
PACID_29650	COG0783	Belongs to the Dps family
PACID_29660	COG1028	Short-chain dehydrogenase reductase Sdr
PACID_29680	COG1295	ribonuclease BN
PACID_29720	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
PACID_29770	COG4572	Cation transport regulator
PACID_29780	COG0667	Aldo Keto reductase
PACID_29810	COG3158	transport of potassium into the cell
PACID_29880	COG1857	crispr-associated protein
PACID_29910	COG1518	maintenance of DNA repeat elements
PACID_29920	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
PACID_29990	COG0477	Major facilitator Superfamily
PACID_30000	COG0445	tRNA wobble uridine modification
PACID_30020	COG0586	Pfam SNARE associated Golgi protein
PACID_30040	COG0438	transferase activity, transferring glycosyl groups
PACID_30060	COG0745	RESPONSE REGULATOR receiver
PACID_30070	COG1968	undecaprenyl-diphosphatase activity
PACID_30090	COG0390	transport system, permease component
PACID_30110	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PACID_30130	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
PACID_30150	COG4221	oxidoreductase activity
PACID_30200	COG1653	transport
PACID_30210	COG1175	transmembrane transport
PACID_30220	COG0395	ABC-type sugar transport system, permease component
PACID_30240	COG1609	Transcriptional regulator
PACID_30250	COG1069	ribulokinase activity
PACID_30260	COG1064	alcohol dehydrogenase
PACID_30280	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
PACID_30290	COG1063	alcohol dehydrogenase
PACID_30310	COG1946	Acyl-CoA thioesterase
PACID_30330	COG0673	inositol 2-dehydrogenase activity
PACID_30340	COG1942	4-Oxalocrotonate Tautomerase
PACID_30370	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
PACID_30400	COG1296	Branched-chain amino acid permease (Azaleucine resistance)
PACID_30440	COG0433	COG0433 Predicted ATPase
PACID_30470	COG3263	regulation of cellular component size
PACID_30490	COG0517	IMP dehydrogenase activity
PACID_30490	COG1125	glycine betaine transport
PACID_30510	COG1174	glycine betaine transport
PACID_30530	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
PACID_30650	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
PACID_30730	COG2130	NADP-dependent
PACID_30740	COG1506	peptidase
PACID_30740	COG4946	Tricorn protease homolog
PACID_30740	COG0823	Involved in the tonB-independent uptake of proteins
PACID_30750	COG0584	glycerophosphoryl diester phosphodiesterase
PACID_30800	COG1316	TRANSCRIPTIONal
PACID_30810	COG1609	Transcriptional regulator
PACID_30820	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
PACID_30880	COG2801	Transposase and inactivated derivatives
PACID_30890	COG3321	synthase
PACID_30890	COG1028	Short-chain dehydrogenase reductase Sdr
PACID_30890	COG0604	alcohol dehydrogenase
PACID_30900	COG0137	argininosuccinate synthase activity
PACID_30940	COG0561	phosphatase activity
PACID_30960	COG2801	Transposase and inactivated derivatives
PACID_30990	COG3833	ABC-type maltose transport systems, permease component
PACID_31020	COG0172	Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec)
PACID_31060	COG2360	Functions in the N-end rule pathway of protein degradation where it conjugates Leu, Phe and, less efficiently, Met from aminoacyl-tRNAs to the N-termini of proteins containing an N-terminal arginine or lysine
PACID_31080	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
PACID_31100	COG0508	dehydrogenase complex catalyzes the overall conversion of
PACID_31110	COG0022	dehydrogenase e1 component
PACID_31200	COG0477	Major facilitator Superfamily
PACID_31220	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PACID_31230	COG0006	proline dipeptidase activity
PACID_31310	COG0154	amidase activity
PACID_31320	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
PACID_31350	COG1126	abc transporter atp-binding protein
PACID_31360	COG0765	amino acid transport
PACID_31370	COG0765	amino acid transport
PACID_31460	COG1715	Restriction endonuclease
PACID_31530	COG5002	protein histidine kinase activity
PACID_31560	COG1621	beta-fructofuranosidase activity
PACID_31570	COG2390	Transcriptional regulator
PACID_31610	COG0235	Class ii aldolase
PACID_31620	COG0656	L-ascorbic acid biosynthetic process
PACID_31630	COG1830	Aldolase
PACID_31640	COG1063	alcohol dehydrogenase
PACID_31660	COG0477	Major facilitator Superfamily
PACID_31780	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
PACID_31870	COG0366	Alpha amylase catalytic
PACID_31890	COG1653	transport
PACID_31900	COG0395	ABC-type sugar transport system, permease component
PACID_31910	COG1175	transmembrane transport
PACID_31930	COG1285	pathogenesis
PACID_31970	COG1940	carbohydrate kinase activity
PACID_32000	COG0395	ABC-type sugar transport system, permease component
PACID_32020	COG0366	Alpha amylase catalytic
PACID_32050	COG1132	(ABC) transporter
PACID_32060	COG1132	(ABC) transporter
PACID_32090	COG2423	ornithine cyclodeaminase activity
PACID_32130	COG0395	ABC-type sugar transport system, permease component
PACID_32140	COG1175	transmembrane transport
PACID_32160	COG1609	Transcriptional regulator
PACID_32190	COG2205	protein histidine kinase activity
PACID_32210	COG1443	Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)
PACID_32260	COG1902	pentaerythritol trinitrate reductase activity
PACID_32270	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
PACID_32290	COG1968	undecaprenyl-diphosphatase activity
PACID_32320	COG0359	binds to the 23S rRNA
PACID_32330	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
PACID_32350	COG0360	Binds together with S18 to 16S ribosomal RNA
PACID_32360	COG2837	iron assimilation
PACID_32380	COG0672	)-iron permease
PACID_32400	COG1022	Amp-dependent synthetase and ligase
PACID_32430	COG0300	oxidoreductase activity
PACID_32520	COG0277	FAD linked oxidase domain protein
PACID_32560	COG2197	response regulator
PACID_32570	COG1051	belongs to the nudix hydrolase family
PACID_32580	COG1131	(ABC) transporter
PACID_32670	COG0577	efflux transmembrane transporter activity
PACID_32670	COG1136	(ABC) transporter
PACID_32680	COG4585	Histidine kinase
PACID_32690	COG0247	lactate metabolic process
PACID_32700	COG3075	Conversion of glycerol 3-phosphate to dihydroxyacetone. Uses fumarate or nitrate as electron acceptor
PACID_32710	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
PACID_32720	COG1846	Transcriptional regulator
PACID_32730	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
PACID_32750	COG1113	amino acid transport
PACID_32830	COG0534	Mate efflux family protein
PACID_32870	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
PACID_32890	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
PACID_32910	COG1175	transmembrane transport
PACID_32960	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
PACID_33030	COG2337	Toxic component of a toxin-antitoxin (TA) module
PACID_33040	COG3609	addiction module antidote protein, CC2985 family
PACID_33050	COG2002	toxin-antitoxin pair type II binding
PACID_33080	COG2146	nitrite reductase [NAD(P)H] activity
PACID_33100	COG0842	Transport permease protein
PACID_33100	COG1716	ATPase activity
PACID_33100	COG1131	(ABC) transporter
PACID_33110	COG0515	serine threonine protein kinase
PACID_33140	COG0205	6-phosphofructokinase activity
PACID_33150	COG0686	Belongs to the AlaDH PNT family
PACID_33160	COG2267	carboxylic ester hydrolase activity
PACID_33250	COG1376	ErfK ybiS ycfS ynhG family protein
PACID_33260	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
PACID_33280	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
PACID_33380	COG0038	chloride channel
PACID_33400	COG2848	UPF0210 protein
PACID_33410	COG3830	Belongs to the UPF0237 family
PACID_33440	COG0114	fumarate hydratase activity
PACID_33460	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
PACID_33530	COG2814	Major facilitator Superfamily
PACID_33550	COG1349	DNA-binding transcription factor activity
PACID_33560	COG0540	Belongs to the ATCase OTCase family
PACID_33590	COG0668	transmembrane transport
PACID_33600	COG1929	Belongs to the glycerate kinase type-1 family
PACID_33620	COG0617	tRNA 3'-terminal CCA addition
PACID_33630	COG1012	belongs to the aldehyde dehydrogenase family
PACID_33640	COG0385	Bile acid
PACID_33690	COG1595	DNA-templated transcription, initiation
PACID_33710	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
PACID_33730	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
PACID_33740	COG2390	Transcriptional regulator
PACID_33760	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
PACID_33790	COG0395	ABC-type sugar transport system, permease component
PACID_33810	COG1653	transport
PACID_33840	COG1609	Transcriptional regulator
PACID_33860	COG1733	regulation of RNA biosynthetic process
PACID_33880	COG0564	pseudouridine synthase activity
PACID_33920	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
PACID_33920	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
PACID_33940	COG4585	Histidine kinase
PACID_33960	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
PACID_33980	COG1082	Xylose isomerase domain protein TIM barrel
PACID_33990	COG0673	inositol 2-dehydrogenase activity
PACID_34000	COG1609	Transcriptional regulator
PACID_34020	COG2855	membrane
PACID_34070	COG0673	inositol 2-dehydrogenase activity
PACID_34080	COG2814	Major facilitator Superfamily
PACID_34090	COG2814	Major facilitator Superfamily
PACID_34100	COG1609	Transcriptional regulator
PACID_34110	COG2814	Major facilitator Superfamily
PACID_34130	COG1082	Xylose isomerase domain protein TIM barrel
PACID_34140	COG0673	inositol 2-dehydrogenase activity
PACID_34150	COG1082	Xylose isomerase domain protein TIM barrel
PACID_34190	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PACID_34210	COG1181	Belongs to the D-alanine--D-alanine ligase family
PACID_34240	COG1793	dna ligase
PACID_34240	COG3285	dna ligase
PACID_34260	COG1192	Involved in chromosome partitioning
PACID_34280	COG0357	Ribosomal RNA small subunit methyltransferase G
PACID_34290	COG2076	Multidrug Resistance protein
PACID_34310	COG0706	membrane insertase activity
PACID_34320	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
PACID_34330	COG0594	ribonuclease P activity