locus-tag	class	description
APY29_00005	COG0593	it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids
APY29_00015	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
APY29_00020	COG0187	DNA topoisomerase II activity
APY29_00030	COG0501	Belongs to the peptidase M48B family
APY29_00060	COG0854	Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate
APY29_00070	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_00110	COG2003	Belongs to the UPF0758 family
APY29_00120	COG2963	transposase activity
APY29_00125	COG2801	Transposase and inactivated derivatives
APY29_00185	COG0793	Belongs to the peptidase S41A family
APY29_00190	COG4942	peptidase
APY29_00200	COG2234	aminopeptidase activity
APY29_00210	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_00215	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_00225	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_00230	COG1064	alcohol dehydrogenase
APY29_00235	COG0493	'glutamate synthase
APY29_00240	COG0070	glutamate synthase
APY29_00240	COG0069	glutamate synthase activity
APY29_00240	COG0067	glutamate synthase
APY29_00285	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
APY29_00300	COG1922	lipopolysaccharide N-acetylmannosaminouronosyltransferase activity
APY29_00305	COG0297	glycogen (starch) synthase activity
APY29_00305	COG0438	transferase activity, transferring glycosyl groups
APY29_00325	COG0367	asparagine synthase
APY29_00355	COG1132	(ABC) transporter
APY29_00385	COG1493	Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr). The two antagonistic activities of HprK P are regulated by several intracellular metabolites, which change their concentration in response to the absence or presence of rapidly metabolisable carbon sources (glucose, fructose, etc.) in the growth medium. Therefore, by controlling the phosphorylation state of HPr, HPrK P is a sensor enzyme that plays a major role in the regulation of carbon metabolism and sugar transport it mediates carbon catabolite repression (CCR), and regulates PTS-catalyzed carbohydrate uptake and inducer exclusion
APY29_00465	COG1111	helicase
APY29_00465	COG1205	dead DEAH box helicase
APY29_00470	COG1272	protein, Hemolysin III
APY29_00485	COG0300	oxidoreductase activity
APY29_00490	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_00530	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
APY29_00535	COG3710	Transcriptional regulator
APY29_00555	COG2197	response regulator
APY29_00560	COG4585	Histidine kinase
APY29_00570	COG1304	FMN binding
APY29_00625	COG0662	Cupin 2, conserved barrel domain protein
APY29_00635	COG4772	TonB-dependent receptor
APY29_00645	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
APY29_00675	COG0714	Associated with various cellular activities
APY29_00725	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
APY29_00775	COG0366	Alpha amylase catalytic
APY29_00780	COG0366	Alpha amylase catalytic
APY29_00785	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
APY29_00865	COG3504	Conjugal transfer protein
APY29_00870	COG2948	multi-organism process
APY29_00935	COG3041	Addiction module toxin RelE StbE family
APY29_00940	COG3077	Addiction module antitoxin, RelB DinJ family
APY29_00995	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
APY29_01000	COG3265	gluconokinase activity
APY29_01005	COG2211	Major facilitator Superfamily
APY29_01010	COG3459	Glycosyltransferase 36 associated
APY29_01025	COG2205	protein histidine kinase activity
APY29_01030	COG1971	Probably functions as a manganese efflux pump
APY29_01040	COG1414	Transcriptional regulator
APY29_01045	COG0738	Major facilitator superfamily
APY29_01050	COG3254	rhamnose metabolic process
APY29_01055	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_01060	COG0179	Fumarylacetoacetate (FAA) hydrolase
APY29_01065	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_01115	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
APY29_01125	COG3162	membrane
APY29_01130	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
APY29_01140	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
APY29_01150	COG1846	Transcriptional regulator
APY29_01150	COG1940	carbohydrate kinase activity
APY29_01155	COG0708	Exodeoxyribonuclease III
APY29_01175	COG2091	lysine biosynthetic process via aminoadipic acid
APY29_01185	COG3540	Alkaline phosphatase
APY29_01190	COG0357	Ribosomal RNA small subunit methyltransferase G
APY29_01210	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_01225	COG0227	Belongs to the bacterial ribosomal protein bL28 family
APY29_01230	COG0267	Belongs to the bacterial ribosomal protein bL33 family
APY29_01235	COG2159	amidohydrolase
APY29_01245	COG0684	Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions
APY29_01250	COG0583	DNA-binding transcription factor activity
APY29_01255	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_01270	COG0210	DNA helicase
APY29_01405	COG3501	Rhs element vgr protein
APY29_01440	COG0631	protein serine/threonine phosphatase activity
APY29_01445	COG0515	serine threonine protein kinase
APY29_01445	COG2815	serine threonine protein kinase
APY29_01485	COG0408	coproporphyrinogen oxidase activity
APY29_01500	COG1506	peptidase
APY29_01500	COG4946	Tricorn protease homolog
APY29_01500	COG0823	Involved in the tonB-independent uptake of proteins
APY29_01525	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
APY29_01540	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APY29_01580	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_01595	COG0463	Glycosyl transferase, family 2
APY29_01605	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
APY29_01610	COG3100	YcgL domain-containing protein
APY29_01625	COG3387	PFAM Glycoside hydrolase 15-related
APY29_01630	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
APY29_01645	COG2239	Acts as a magnesium transporter
APY29_01650	COG0045	succinate-CoA ligase (ADP-forming) activity
APY29_01650	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
APY29_01650	COG1042	CoA-binding domain protein
APY29_01660	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
APY29_01665	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
APY29_01695	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
APY29_01705	COG0842	Transport permease protein
APY29_01710	COG1131	(ABC) transporter
APY29_01715	COG0543	2 iron, 2 sulfur cluster binding
APY29_01715	COG0633	Ferredoxin
APY29_01760	COG1476	TRANSCRIPTIONal
APY29_01770	COG4555	ABC transporter
APY29_01810	COG0625	glutathione transferase activity
APY29_01885	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)
APY29_01900	COG1199	ATP-dependent helicase activity
APY29_01920	COG0042	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines
APY29_01930	COG0745	RESPONSE REGULATOR receiver
APY29_01935	COG2205	protein histidine kinase activity
APY29_01960	COG1654	Acts both as a biotin-- acetyl-CoA-carboxylase ligase and a biotin-operon repressor. In the presence of ATP, BirA activates biotin to form the BirA-biotinyl-5'-adenylate (BirA-bio- 5'-AMP or holoBirA) complex. HoloBirA can either transfer the biotinyl moiety to the biotin carboxyl carrier protein (BCCP) subunit of acetyl-CoA carboxylase, or bind to the biotin operator site and inhibit transcription of the operon
APY29_01960	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
APY29_01965	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
APY29_02000	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
APY29_02040	COG3237	CsbD-like
APY29_02045	COG0180	Tryptophanyl-tRNA synthetase
APY29_02050	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_02065	COG0697	spore germination
APY29_02090	COG1136	(ABC) transporter
APY29_02095	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_02100	COG4585	Histidine kinase
APY29_02105	COG2197	response regulator
APY29_02120	COG0753	catalase activity
APY29_02135	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
APY29_02140	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
APY29_02165	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
APY29_02185	COG0642	Histidine kinase
APY29_02190	COG0745	RESPONSE REGULATOR receiver
APY29_02195	COG1090	epimerase
APY29_02235	COG1690	Belongs to the RtcB family
APY29_02270	COG4943	cyclic-guanylate-specific phosphodiesterase activity
APY29_02285	COG0606	chelatase, subunit chli
APY29_02325	COG0421	Catalyzes the irreversible transfer of a propylamine group from the amino donor S-adenosylmethioninamine (decarboxy- AdoMet) to putrescine (1,4-diaminobutane) to yield spermidine
APY29_02330	COG1166	arginine decarboxylase activity
APY29_02340	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
APY29_02355	COG4221	oxidoreductase activity
APY29_02370	COG0018	arginyl-trna synthetase
APY29_02375	COG2003	Belongs to the UPF0758 family
APY29_02380	COG0452	Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine
APY29_02385	COG0756	dUTP diphosphatase activity
APY29_02405	COG0463	Glycosyl transferase, family 2
APY29_02420	COG1475	DNA binding
APY29_02425	COG1192	Involved in chromosome partitioning
APY29_02435	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
APY29_02440	COG0708	Exodeoxyribonuclease III
APY29_02445	COG2211	Major facilitator Superfamily
APY29_02455	COG2377	Catalyzes the specific phosphorylation of 1,6-anhydro-N- acetylmuramic acid (anhMurNAc) with the simultaneous cleavage of the 1,6-anhydro ring, generating MurNAc-6-P. Is required for the utilization of anhMurNAc either imported from the medium or derived from its own cell wall murein, and thus plays a role in cell wall recycling
APY29_02460	COG0739	heme binding
APY29_02465	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)
APY29_02510	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
APY29_02520	COG3175	Exerts its effect at some terminal stage of cytochrome c oxidase synthesis, probably by being involved in the insertion of the copper B into subunit I
APY29_02550	COG0109	protoheme IX farnesyltransferase activity
APY29_02565	COG0358	DNA primase activity
APY29_02570	COG1295	ribonuclease BN
APY29_02575	COG1610	YqeY-like protein
APY29_02580	COG0828	Belongs to the bacterial ribosomal protein bS21 family
APY29_02585	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
APY29_02590	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
APY29_02600	COG2133	pyrroloquinoline quinone binding
APY29_02605	COG4682	membrane
APY29_02620	COG0531	amino acid
APY29_02630	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_02640	COG3023	N-Acetylmuramoyl-L-alanine amidase
APY29_02645	COG2173	Catalyzes hydrolysis of the D-alanyl-D-alanine dipeptide
APY29_02685	COG5383	Protein conserved in bacteria
APY29_02695	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_02700	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_02705	COG1473	amidohydrolase
APY29_02710	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
APY29_02710	COG2904	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
APY29_02735	COG0583	DNA-binding transcription factor activity
APY29_02740	COG4579	[isocitrate dehydrogenase (NADP+)] phosphatase activity
APY29_02750	COG1158	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template
APY29_02755	COG3118	belongs to the thioredoxin family
APY29_02765	COG2884	Cell division ATP-binding protein ftsE
APY29_02770	COG2177	Part of the ABC transporter FtsEX involved in
APY29_02775	COG2201	protein-glutamate methylesterase activity
APY29_02780	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
APY29_02785	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
APY29_02790	COG2860	membrane
APY29_02795	COG1252	NADH dehydrogenase
APY29_02810	COG0625	glutathione transferase activity
APY29_02815	COG1198	Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA
APY29_02835	COG0534	Mate efflux family protein
APY29_02840	COG0616	signal peptide processing
APY29_02850	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_02865	COG0009	L-threonylcarbamoyladenylate synthase
APY29_02870	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
APY29_02870	COG1754	DNA topoisomerase type I activity
APY29_02890	COG0758	DNA mediated transformation
APY29_02895	COG1652	LysM domain
APY29_02900	COG0242	peptide deformylase activity
APY29_02905	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
APY29_02910	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
APY29_02910	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
APY29_02960	COG1560	Kdo2-lipid A biosynthetic process
APY29_02965	COG1490	D-aminoacyl-tRNA deacylase activity
APY29_02970	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
APY29_02985	COG0582	viral genome integration into host DNA
APY29_03020	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
APY29_03050	COG0024	Methionine aminopeptidase
APY29_03095	COG1182	Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity
APY29_03100	COG0583	DNA-binding transcription factor activity
APY29_03180	COG1063	alcohol dehydrogenase
APY29_03195	COG1132	(ABC) transporter
APY29_03215	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
APY29_03220	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_03235	COG1294	oxidase, subunit
APY29_03240	COG1271	oxidase subunit
APY29_03285	COG3546	catalase activity
APY29_03290	COG3685	Protein conserved in bacteria
APY29_03315	COG2972	Histidine kinase
APY29_03330	COG0531	amino acid
APY29_03350	COG3590	peptidase
APY29_03360	COG0667	Aldo Keto reductase
APY29_03370	COG0583	DNA-binding transcription factor activity
APY29_03380	COG3384	dioxygenase
APY29_03390	COG1573	uracil-dna glycosylase
APY29_03395	COG2335	COG2335, Secreted and surface protein containing fasciclin-like repeats
APY29_03400	COG0025	NhaP-type Na H and K H
APY29_03405	COG1131	(ABC) transporter
APY29_03410	COG0842	Transport permease protein
APY29_03460	COG1522	sequence-specific DNA binding
APY29_03465	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_03470	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
APY29_03490	COG2202	Pas domain
APY29_03490	COG2205	protein histidine kinase activity
APY29_03515	COG1187	pseudouridine synthase activity
APY29_03520	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
APY29_03545	COG2198	Histidine kinase
APY29_03545	COG5002	protein histidine kinase activity
APY29_03545	COG0784	Response regulator, receiver
APY29_03555	COG1666	GTP binding
APY29_03560	COG0697	spore germination
APY29_03565	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
APY29_03570	COG2011	ABC-type metal ion transport system permease component
APY29_03620	COG0508	dehydrogenase complex catalyzes the overall conversion of
APY29_03630	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
APY29_03650	COG0356	it plays a direct role in the translocation of protons across the membrane
APY29_03660	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
APY29_03665	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
APY29_03670	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
APY29_03675	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
APY29_03680	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
APY29_03685	COG0355	proton-transporting ATP synthase activity, rotational mechanism
APY29_03700	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
APY29_03705	COG4191	Histidine kinase
APY29_03710	COG2204	response regulator
APY29_03720	COG0577	efflux transmembrane transporter activity
APY29_03725	COG0577	efflux transmembrane transporter activity
APY29_03730	COG4591	ABC-type transport system involved in lipoprotein release permease component
APY29_03730	COG1136	(ABC) transporter
APY29_03735	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_03740	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
APY29_03800	COG0339	signal peptide processing
APY29_03815	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APY29_03820	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
APY29_03835	COG2819	hydrolase of the alpha beta superfamily
APY29_03845	COG1956	GAF domain-containing protein
APY29_03850	COG0132	Catalyzes a mechanistically unusual reaction, the ATP- dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring
APY29_03860	COG0720	synthase
APY29_03865	COG4206	TonB-dependent receptor
APY29_03875	COG0513	Belongs to the DEAD box helicase family
APY29_03885	COG0625	glutathione transferase activity
APY29_03915	COG0626	cystathionine gamma-synthase activity
APY29_03925	COG0438	transferase activity, transferring glycosyl groups
APY29_03945	COG0438	transferase activity, transferring glycosyl groups
APY29_03950	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
APY29_04005	COG0463	Glycosyl transferase, family 2
APY29_04020	COG2086	electron transfer activity
APY29_04050	COG0836	Belongs to the mannose-6-phosphate isomerase type 2 family
APY29_04050	COG0662	Cupin 2, conserved barrel domain protein
APY29_04055	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
APY29_04085	COG3218	ABC-type transport auxiliary lipoprotein component
APY29_04085	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
APY29_04090	COG1127	ABC transporter
APY29_04095	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
APY29_04110	COG0442	prolyl-tRNA aminoacylation
APY29_04120	COG1183	phosphatidylcholine synthase activity
APY29_04150	COG0525	valine-tRNA ligase activity
APY29_04175	COG0795	lipopolysaccharide-transporting ATPase activity
APY29_04190	COG4974	Belongs to the 'phage' integrase family
APY29_04195	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
APY29_04200	COG0047	phosphoribosylformylglycinamidine synthase activity
APY29_04200	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
APY29_04210	COG1404	Belongs to the peptidase S8 family
APY29_04215	COG5295	Hep Hag repeat protein
APY29_04220	COG1404	Belongs to the peptidase S8 family
APY29_04225	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
APY29_04230	COG1459	type II secretion system
APY29_04235	COG2165	general secretion pathway protein
APY29_04240	COG4970	Tfp pilus assembly protein FimT
APY29_04245	COG2165	general secretion pathway protein
APY29_04250	COG4795	General secretion pathway protein
APY29_04255	COG3156	type II secretion system protein K
APY29_04260	COG3166	PFAM Fimbrial assembly family protein
APY29_04275	COG1450	Type ii and iii secretion system protein
APY29_04280	COG2963	transposase activity
APY29_04285	COG2801	Transposase and inactivated derivatives
APY29_04295	COG2188	Transcriptional regulator
APY29_04345	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
APY29_04360	COG1215	transferase activity, transferring glycosyl groups
APY29_04365	COG1215	transferase activity, transferring glycosyl groups
APY29_04370	COG3405	Belongs to the glycosyl hydrolase 8 (cellulase D) family
APY29_04375	COG0457	Tetratricopeptide repeat
APY29_04400	COG0242	peptide deformylase activity
APY29_04405	COG1307	EDD domain protein, DegV family
APY29_04425	COG0402	S-adenosylhomocysteine deaminase activity
APY29_04430	COG3964	amidohydrolase
APY29_04445	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
APY29_04450	COG0726	polysaccharide deacetylase
APY29_04455	COG4773	Receptor
APY29_04495	COG2801	Transposase and inactivated derivatives
APY29_04500	COG2963	transposase activity
APY29_04520	COG2801	Transposase and inactivated derivatives
APY29_04525	COG2963	transposase activity
APY29_04535	COG1162	GTPase activity
APY29_04560	COG2211	Major facilitator Superfamily
APY29_04565	COG1609	Transcriptional regulator
APY29_04570	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_04575	COG2851	Citrate transporter
APY29_04590	COG0642	Histidine kinase
APY29_04595	COG1840	ABC-type Fe3 transport system, periplasmic component
APY29_04600	COG2197	response regulator
APY29_04615	COG0667	Aldo Keto reductase
APY29_04625	COG0583	DNA-binding transcription factor activity
APY29_04655	COG1301	dicarboxylic acid transport
APY29_04660	COG0281	malic enzyme
APY29_04660	COG0280	phosphate acetyltransferase
APY29_04685	COG1560	Kdo2-lipid A biosynthetic process
APY29_04690	COG1519	Transferase
APY29_04695	COG1538	Outer membrane efflux protein
APY29_04700	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
APY29_04720	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
APY29_04725	COG0066	3-isopropylmalate dehydratase activity
APY29_04730	COG0473	3-isopropylmalate dehydrogenase activity
APY29_04735	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)
APY29_04755	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
APY29_04760	COG0405	Gamma-glutamyltransferase
APY29_04765	COG0840	transmembrane signaling receptor activity
APY29_04775	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
APY29_04780	COG3710	Transcriptional regulator
APY29_04800	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
APY29_04810	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
APY29_04835	COG0563	adenylate kinase activity
APY29_04840	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
APY29_04850	COG3781	membrane
APY29_04855	COG0671	phosphoesterase, PA-phosphatase related
APY29_04865	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_04870	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
APY29_04875	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
APY29_04905	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
APY29_04920	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
APY29_04930	COG0352	thiamine-phosphate diphosphorylase activity
APY29_04935	COG1773	rubredoxin
APY29_04940	COG2912	Transglutaminase-like superfamily
APY29_04950	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
APY29_04960	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
APY29_04975	COG3079	Belongs to the UPF0149 family
APY29_04980	COG0006	proline dipeptidase activity
APY29_04990	COG0006	proline dipeptidase activity
APY29_05005	COG0635	Involved in the biosynthesis of porphyrin-containing compound
APY29_05010	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
APY29_05020	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
APY29_05025	COG1561	YicC-like family, N-terminal region
APY29_05030	COG0194	GDP metabolic process
APY29_05035	COG1758	RNA polymerase activity
APY29_05040	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
APY29_05050	COG1200	Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y-DNA)
APY29_05060	COG0254	rRNA binding
APY29_05075	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
APY29_05105	COG0714	Associated with various cellular activities
APY29_05125	COG2304	oxidoreductase activity
APY29_05135	COG1301	dicarboxylic acid transport
APY29_05140	COG0021	Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate
APY29_05160	COG4773	Receptor
APY29_05215	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
APY29_05220	COG4149	molybdate abc transporter
APY29_05225	COG0725	ABC transporter, periplasmic molybdate-binding protein
APY29_05230	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_05230	COG3453	Protein conserved in bacteria
APY29_05240	COG3047	cAMP biosynthetic process
APY29_05245	COG3047	cAMP biosynthetic process
APY29_05255	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
APY29_05275	COG0126	phosphoglycerate kinase activity
APY29_05285	COG0469	pyruvate kinase activity
APY29_05290	COG3588	fructose-bisphosphate aldolase
APY29_05295	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
APY29_05310	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
APY29_05310	COG1648	precorrin-2 dehydrogenase activity
APY29_05350	COG0175	sulfate reduction
APY29_05355	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
APY29_05360	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
APY29_05365	COG0175	sulfate reduction
APY29_05370	COG0529	Catalyzes the synthesis of activated sulfate
APY29_05370	COG2895	sulfate adenylyltransferase (ATP) activity
APY29_05380	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_05395	COG2801	Transposase and inactivated derivatives
APY29_05410	COG0308	aminopeptidase N
APY29_05420	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
APY29_05435	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_05440	COG3250	beta-galactosidase activity
APY29_05450	COG1609	Transcriptional regulator
APY29_05465	COG1970	mechanosensitive ion channel activity
APY29_05485	COG3273	potassium ion transport
APY29_05485	COG0471	metal ion transport
APY29_05490	COG0220	tRNA (guanine-N7-)-methyltransferase activity
APY29_05495	COG2022	thiamine diphosphate biosynthetic process
APY29_05525	COG2963	transposase activity
APY29_05575	COG0189	ligase activity
APY29_05585	COG0745	RESPONSE REGULATOR receiver
APY29_05590	COG5002	protein histidine kinase activity
APY29_05600	COG2963	transposase activity
APY29_05605	COG2801	Transposase and inactivated derivatives
APY29_05625	COG0237	dephospho-CoA kinase activity
APY29_05630	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
APY29_05670	COG0045	succinate-CoA ligase (ADP-forming) activity
APY29_05675	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
APY29_05690	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
APY29_05690	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
APY29_05700	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
APY29_05705	COG0564	pseudouridine synthase activity
APY29_05720	COG3011	Protein conserved in bacteria
APY29_05725	COG0840	transmembrane signaling receptor activity
APY29_05740	COG3387	PFAM Glycoside hydrolase 15-related
APY29_05745	COG1877	trehalose-phosphatase activity
APY29_05785	COG2827	Endonuclease containing a URI domain
APY29_05790	COG4771	TonB-dependent receptor
APY29_05800	COG0667	Aldo Keto reductase
APY29_05805	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
APY29_05810	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
APY29_05815	COG1116	anion transmembrane transporter activity
APY29_05820	COG0542	response to heat
APY29_05825	COG4206	TonB-dependent receptor
APY29_05845	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
APY29_05855	COG1492	cobalamin metabolic process
APY29_05865	COG2038	nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity
APY29_05885	COG0019	diaminopimelate decarboxylase activity
APY29_05900	COG4264	IucA IucC family
APY29_05910	COG4772	TonB-dependent receptor
APY29_05935	COG4651	solute:proton antiporter activity
APY29_05935	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
APY29_06000	COG0477	Major facilitator Superfamily
APY29_06015	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)
APY29_06030	COG0217	transcriptional regulatory protein
APY29_06035	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
APY29_06040	COG0632	four-way junction helicase activity
APY29_06045	COG3158	transport of potassium into the cell
APY29_06055	COG2255	four-way junction helicase activity
APY29_06060	COG0824	Thioesterase
APY29_06070	COG0848	biopolymer transport protein
APY29_06080	COG0823	Involved in the tonB-independent uptake of proteins
APY29_06085	COG2885	chlorophyll binding
APY29_06095	COG0602	queuosine metabolic process
APY29_06105	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
APY29_06110	COG3920	Histidine kinase
APY29_06130	COG0840	transmembrane signaling receptor activity
APY29_06165	COG0514	ATP-dependent DNA helicase (RecQ)
APY29_06170	COG0783	Belongs to the Dps family
APY29_06175	COG1643	Atp-dependent helicase
APY29_06185	COG0837	glucose binding
APY29_06200	COG0535	radical SAM domain protein
APY29_06205	COG0535	radical SAM domain protein
APY29_06210	COG5424	Ring cyclization and eight-electron oxidation of 3a-(2- amino-2-carboxyethyl)-4,5-dioxo-4,5,6,7,8,9-hexahydroquinoline- 7,9-dicarboxylic-acid to PQQ
APY29_06215	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
APY29_06220	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
APY29_06230	COG1215	transferase activity, transferring glycosyl groups
APY29_06235	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
APY29_06245	COG1199	ATP-dependent helicase activity
APY29_06255	COG1397	ADP-ribosylglycohydrolase
APY29_06265	COG0189	ligase activity
APY29_06280	COG0835	chemotaxis
APY29_06285	COG0840	transmembrane signaling receptor activity
APY29_06315	COG1446	asparaginase
APY29_06320	COG3142	Participates in the control of copper homeostasis
APY29_06355	COG3537	Alpha-1,2-mannosidase
APY29_06405	COG1472	Belongs to the glycosyl hydrolase 3 family
APY29_06415	COG3525	Glycosyl hydrolase, family 20, catalytic domain
APY29_06420	COG1388	LysM domain
APY29_06420	COG3858	chitin binding
APY29_06440	COG0837	glucose binding
APY29_06445	COG1385	rRNA (uridine-N3-)-methyltransferase activity
APY29_06455	COG0494	nUDIX hydrolase
APY29_06465	COG3956	TIGRFAM MazG family protein
APY29_06470	COG1742	UPF0060 membrane protein
APY29_06480	COG0404	The glycine cleavage system catalyzes the degradation of glycine
APY29_06485	COG0509	glycine decarboxylation via glycine cleavage system
APY29_06515	COG1960	acyl-CoA dehydrogenase activity
APY29_06520	COG2267	carboxylic ester hydrolase activity
APY29_06525	COG1309	transcriptional regulator
APY29_06550	COG2801	Transposase and inactivated derivatives
APY29_06555	COG2963	transposase activity
APY29_06565	COG2801	Transposase and inactivated derivatives
APY29_06570	COG4771	TonB-dependent receptor
APY29_06580	COG1281	Redox regulated molecular chaperone. Protects both thermally unfolding and oxidatively damaged proteins from irreversible aggregation. Plays an important role in the bacterial defense system toward oxidative stress
APY29_06585	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
APY29_06590	COG0463	Glycosyl transferase, family 2
APY29_06595	COG0516	GMP reductase activity
APY29_06595	COG0517	IMP dehydrogenase activity
APY29_06600	COG2982	Protein involved in outer membrane biogenesis
APY29_06605	COG1272	protein, Hemolysin III
APY29_06610	COG4108	Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP
APY29_06615	COG0739	heme binding
APY29_06620	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
APY29_06625	COG0626	cystathionine gamma-synthase activity
APY29_06630	COG0527	aspartate kinase activity
APY29_06630	COG0460	homoserine dehydrogenase
APY29_06640	COG1760	l-serine dehydratase
APY29_06660	COG2353	YceI-like domain
APY29_06665	COG2205	protein histidine kinase activity
APY29_06665	COG0784	Response regulator, receiver
APY29_06665	COG2198	Histidine kinase
APY29_06690	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
APY29_06700	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
APY29_06705	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
APY29_06710	COG0259	pyridoxamine-phosphate oxidase activity
APY29_06720	COG1842	Phage shock protein A
APY29_06745	COG0754	glutathionylspermidine amidase activity
APY29_06835	COG0531	amino acid
APY29_06840	COG2197	response regulator
APY29_06860	COG2801	Transposase and inactivated derivatives
APY29_06865	COG2963	transposase activity
APY29_06875	COG1113	amino acid transport
APY29_06885	COG1271	oxidase subunit
APY29_06890	COG1294	oxidase, subunit
APY29_06900	COG2239	Acts as a magnesium transporter
APY29_06910	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
APY29_06920	COG1660	Displays ATPase and GTPase activities
APY29_06925	COG1493	Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr). The two antagonistic activities of HprK P are regulated by several intracellular metabolites, which change their concentration in response to the absence or presence of rapidly metabolisable carbon sources (glucose, fructose, etc.) in the growth medium. Therefore, by controlling the phosphorylation state of HPr, HPrK P is a sensor enzyme that plays a major role in the regulation of carbon metabolism and sugar transport it mediates carbon catabolite repression (CCR), and regulates PTS-catalyzed carbohydrate uptake and inducer exclusion
APY29_06930	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
APY29_06945	COG1137	ATPase activity
APY29_06950	COG1934	Involved in the assembly of lipopolysaccharide (LPS). Required for the translocation of LPS from the inner membrane to the outer membrane. May form a bridge between the inner membrane and the outer membrane, via interactions with LptC and LptD, thereby facilitating LPS transfer across the periplasm
APY29_06960	COG1778	Involved in the biosynthesis of lipopolysaccharides (LPSs). Catalyzes the hydrolysis of 3-deoxy-D-manno-octulosonate 8-phosphate (KDO 8-P) to 3-deoxy-D-manno-octulosonate (KDO) and inorganic phosphate
APY29_06970	COG0271	Belongs to the BolA IbaG family
APY29_06975	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
APY29_06995	COG0299	Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate
APY29_07010	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
APY29_07020	COG0628	permease
APY29_07030	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
APY29_07035	COG3178	'Phosphotransferase
APY29_07050	COG1555	photosystem II stabilization
APY29_07065	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
APY29_07070	COG1477	protein flavinylation
APY29_07095	COG3128	pkhd-type hydroxylase
APY29_07100	COG4774	siderophore transport
APY29_07115	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
APY29_07120	COG0719	Fe-S assembly protein
APY29_07125	COG0396	ATPase activity
APY29_07130	COG0719	Fe-S assembly protein
APY29_07135	COG1959	2 iron, 2 sulfur cluster binding
APY29_07145	COG0693	protein deglycase activity
APY29_07165	COG0739	heme binding
APY29_07180	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
APY29_07205	COG0519	Catalyzes the synthesis of GMP from XMP
APY29_07215	COG1678	Uncharacterized ACR, COG1678
APY29_07220	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
APY29_07225	COG0540	Belongs to the ATCase OTCase family
APY29_07230	COG1764	response to oxidative stress
APY29_07240	COG0384	phenazine biosynthesis protein PhzF
APY29_07245	COG0384	phenazine biosynthesis protein PhzF
APY29_07250	COG0527	aspartate kinase activity
APY29_07265	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
APY29_07275	COG0142	geranyltranstransferase activity
APY29_07280	COG0629	single-stranded DNA binding
APY29_07290	COG3321	synthase
APY29_07290	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_07290	COG0604	alcohol dehydrogenase
APY29_07295	COG2080	2 iron, 2 sulfur cluster binding
APY29_07300	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
APY29_07305	COG1529	Aldehyde oxidase and xanthine dehydrogenase
APY29_07310	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
APY29_07355	COG2879	small protein
APY29_07360	COG1966	Carbon starvation protein
APY29_07365	COG1741	Belongs to the pirin family
APY29_07380	COG1741	Belongs to the pirin family
APY29_07390	COG1515	deoxyribonuclease V activity
APY29_07395	COG0588	phosphoglycerate mutase activity
APY29_07405	COG3590	peptidase
APY29_07410	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_07415	COG2201	protein-glutamate methylesterase activity
APY29_07420	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
APY29_07425	COG2202	Pas domain
APY29_07425	COG2199	diguanylate cyclase activity
APY29_07425	COG2200	EAL domain
APY29_07430	COG0835	chemotaxis
APY29_07435	COG0840	transmembrane signaling receptor activity
APY29_07440	COG2198	Histidine kinase
APY29_07440	COG0643	Histidine kinase
APY29_07470	COG1197	Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site
APY29_07480	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
APY29_07485	COG0745	RESPONSE REGULATOR receiver
APY29_07490	COG2205	protein histidine kinase activity
APY29_07505	COG4452	Inner membrane protein CreD
APY29_07530	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)
APY29_07535	COG0735	belongs to the Fur family
APY29_07550	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_07555	COG1538	Outer membrane efflux protein
APY29_07560	COG1309	transcriptional regulator
APY29_07565	COG0667	Aldo Keto reductase
APY29_07580	COG2207	Transcriptional regulator
APY29_07590	COG0583	DNA-binding transcription factor activity
APY29_07595	COG2814	Major facilitator Superfamily
APY29_07715	COG5002	protein histidine kinase activity
APY29_07715	COG5001	Diguanylate cyclase
APY29_07720	COG1187	pseudouridine synthase activity
APY29_07725	COG3706	GGDEF domain
APY29_07725	COG0745	RESPONSE REGULATOR receiver
APY29_07745	COG0684	Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions
APY29_07750	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
APY29_07755	COG0475	glutathione-regulated potassium exporter activity
APY29_07765	COG0745	RESPONSE REGULATOR receiver
APY29_07770	COG1538	Outer membrane efflux protein
APY29_07795	COG1132	(ABC) transporter
APY29_07835	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
APY29_07840	COG2155	Conserved Protein
APY29_07880	COG3118	belongs to the thioredoxin family
APY29_07890	COG0495	leucyl-tRNA aminoacylation
APY29_07905	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
APY29_07920	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
APY29_07935	COG2968	Membrane
APY29_07940	COG0424	maF-like protein
APY29_07945	COG1530	ribonuclease E activity
APY29_07950	COG3164	Protein of unknown function
APY29_07960	COG0312	modulator of DNA gyrase
APY29_07965	COG3028	Belongs to the UPF0307 family
APY29_07970	COG0312	modulator of DNA gyrase
APY29_07980	COG4104	PAAR repeat-containing protein
APY29_07995	COG0142	geranyltranstransferase activity
APY29_08000	COG1722	exodeoxyribonuclease VII activity
APY29_08005	COG0037	tRNA processing
APY29_08015	COG1785	Belongs to the alkaline phosphatase family
APY29_08020	COG1301	dicarboxylic acid transport
APY29_08025	COG4106	trans-aconitate 2-methyltransferase activity
APY29_08035	COG0791	NLP P60 protein
APY29_08040	COG0791	NLP P60 protein
APY29_08045	COG1047	Peptidyl-prolyl cis-trans
APY29_08050	COG2311	Membrane
APY29_08055	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_08060	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
APY29_08080	COG3590	peptidase
APY29_08085	COG3590	peptidase
APY29_08105	COG0489	protein tyrosine kinase activity
APY29_08110	COG0717	Belongs to the dCTP deaminase family
APY29_08140	COG2801	Transposase and inactivated derivatives
APY29_08155	COG1404	Belongs to the peptidase S8 family
APY29_08170	COG2336	PFAM SpoVT AbrB
APY29_08180	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
APY29_08185	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
APY29_08200	COG0494	nUDIX hydrolase
APY29_08225	COG0688	phosphatidylethanolamine metabolic process
APY29_08235	COG2890	protein-(glutamine-N5) methyltransferase activity
APY29_08240	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
APY29_08245	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
APY29_08250	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
APY29_08270	COG0101	tRNA pseudouridine synthase activity
APY29_08275	COG0135	phosphoribosylanthranilate isomerase activity
APY29_08285	COG0133	tryptophan synthase activity
APY29_08295	COG0159	tryptophan synthase activity
APY29_08300	COG0777	Component of the acetyl coenzyme A carboxylase (ACC) complex. Biotin carboxylase (BC) catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the transcarboxylase to acetyl-CoA to form malonyl- CoA
APY29_08305	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
APY29_08340	COG0300	oxidoreductase activity
APY29_08345	COG0149	triose-phosphate isomerase activity
APY29_08360	COG0838	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
APY29_08365	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
APY29_08370	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
APY29_08375	COG0649	NAD binding
APY29_08380	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
APY29_08385	COG1894	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain
APY29_08395	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
APY29_08400	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
APY29_08410	COG0713	ATP synthesis coupled electron transport
APY29_08425	COG1007	ATP synthesis coupled electron transport
APY29_08435	COG0779	Required for maturation of 30S ribosomal subunits
APY29_08440	COG0195	Participates in both transcription termination and antitermination
APY29_08445	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
APY29_08450	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
APY29_08455	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
APY29_08460	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
APY29_08465	COG1185	polyribonucleotide nucleotidyltransferase activity
APY29_08495	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
APY29_08500	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
APY29_08510	COG2095	MarC family integral membrane protein
APY29_08520	COG1611	Belongs to the LOG family
APY29_08560	COG0556	nucleotide-excision repair
APY29_08575	COG3505	Type IV secretory pathway VirD4
APY29_08595	COG2948	multi-organism process
APY29_08675	COG1082	Xylose isomerase domain protein TIM barrel
APY29_08700	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)
APY29_08705	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
APY29_08710	COG0291	Belongs to the bacterial ribosomal protein bL35 family
APY29_08715	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
APY29_08720	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
APY29_08725	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
APY29_08725	COG0072	phenylalanine-tRNA ligase activity
APY29_08730	COG0776	regulation of translation
APY29_08775	COG0438	transferase activity, transferring glycosyl groups
APY29_08780	COG0438	transferase activity, transferring glycosyl groups
APY29_08815	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
APY29_08820	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_08825	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
APY29_08845	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)
APY29_08855	COG1960	acyl-CoA dehydrogenase activity
APY29_08865	COG3040	lipid binding
APY29_08880	COG0322	excinuclease ABC activity
APY29_08895	COG4191	Histidine kinase
APY29_08895	COG0784	Response regulator, receiver
APY29_08900	COG2924	Could be a mediator in iron transactions between iron acquisition and iron-requiring processes, such as synthesis and or repair of Fe-S clusters in biosynthetic enzymes
APY29_08905	COG1194	a g-specific adenine glycosylase
APY29_08910	COG0552	protein localization to endoplasmic reticulum
APY29_08920	COG3938	Belongs to the proline racemase family
APY29_08925	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_08940	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
APY29_08950	COG0006	proline dipeptidase activity
APY29_08965	COG0531	amino acid
APY29_09020	COG4206	TonB-dependent receptor
APY29_09055	COG0326	Molecular chaperone. Has ATPase activity
APY29_09060	COG0742	ribosomal rna small subunit methyltransferase
APY29_09065	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
APY29_09075	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
APY29_09080	COG0405	Gamma-glutamyltransferase
APY29_09090	COG3291	Pkd domain containing protein
APY29_09095	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
APY29_09120	COG2801	Transposase and inactivated derivatives
APY29_09145	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
APY29_09150	COG0343	queuine tRNA-ribosyltransferase activity
APY29_09155	COG1862	Preprotein translocase
APY29_09165	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
APY29_09200	COG2801	Transposase and inactivated derivatives
APY29_09220	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
APY29_09220	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
APY29_09225	COG1105	Belongs to the carbohydrate kinase PfkB family
APY29_09230	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)
APY29_09230	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
APY29_09235	COG1609	Transcriptional regulator
APY29_09240	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_09245	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_09255	COG2902	Dehydrogenase
APY29_09260	COG0477	Major facilitator Superfamily
APY29_09270	COG5002	protein histidine kinase activity
APY29_09270	COG2205	protein histidine kinase activity
APY29_09270	COG0784	Response regulator, receiver
APY29_09275	COG2733	membrane
APY29_09300	COG1526	Required for formate dehydrogenase (FDH) activity. Acts as a sulfur carrier protein that transfers sulfur from IscS to the molybdenum cofactor prior to its insertion into FDH
APY29_09305	COG0243	molybdopterin cofactor binding
APY29_09315	COG0477	Major facilitator Superfamily
APY29_09320	COG2703	oxygen carrier activity
APY29_09325	COG3706	GGDEF domain
APY29_09325	COG0745	RESPONSE REGULATOR receiver
APY29_09330	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_09335	COG0174	glutamine synthetase
APY29_09340	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
APY29_09355	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
APY29_09375	COG3842	ATPase activity
APY29_09380	COG1176	ABC-type spermidine putrescine transport system, permease component I
APY29_09385	COG1177	transmembrane transport
APY29_09395	COG1012	belongs to the aldehyde dehydrogenase family
APY29_09410	COG4535	Mg2 and Co2 transporter CorC
APY29_09420	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
APY29_09430	COG1702	phosphate starvation-inducible protein PhoH
APY29_09435	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
APY29_09450	COG0741	lytic transglycosylase activity
APY29_09455	COG0723	plastoquinol--plastocyanin reductase activity
APY29_09460	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
APY29_09465	COG2857	Cytochrome c1
APY29_09470	COG0625	glutathione transferase activity
APY29_09475	COG2969	positive regulation of protein catabolic process
APY29_09490	COG1201	RNA secondary structure unwinding
APY29_09495	COG2094	Belongs to the DNA glycosylase MPG family
APY29_09500	COG0840	transmembrane signaling receptor activity
APY29_09505	COG0835	chemotaxis
APY29_09530	COG2801	Transposase and inactivated derivatives
APY29_09580	COG1262	PFAM Formylglycine-generating sulfatase enzyme
APY29_09590	COG1570	exodeoxyribonuclease VII activity
APY29_09595	COG1600	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
APY29_09600	COG0062	Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration
APY29_09600	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
APY29_09605	COG0802	atpase or kinase
APY29_09610	COG0860	N-Acetylmuramoyl-L-alanine amidase
APY29_09615	COG0323	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a molecular matchmaker , a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
APY29_09635	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_09640	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)
APY29_09645	COG0501	Belongs to the peptidase M48B family
APY29_09655	COG2081	HI0933 family
APY29_09660	COG4681	YaeQ
APY29_09670	COG0625	glutathione transferase activity
APY29_09680	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
APY29_09685	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
APY29_09690	COG0513	Belongs to the DEAD box helicase family
APY29_09715	COG0483	inositol monophosphate 1-phosphatase activity
APY29_09730	COG3300	MHYT domain
APY29_09730	COG5001	Diguanylate cyclase
APY29_09735	COG1509	lysine 2,3-aminomutase activity
APY29_09740	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
APY29_09750	COG0402	S-adenosylhomocysteine deaminase activity
APY29_09755	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
APY29_09775	COG2801	Transposase and inactivated derivatives
APY29_09785	COG2801	Transposase and inactivated derivatives
APY29_09815	COG4302	ethanolamine ammonia-lyase activity
APY29_09840	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
APY29_09845	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
APY29_09855	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
APY29_09865	COG2166	iron-sulfur cluster assembly
APY29_09870	COG0215	cysteine-tRNA ligase activity
APY29_09880	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
APY29_09885	COG0137	argininosuccinate synthase activity
APY29_09900	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
APY29_09910	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
APY29_09915	COG0165	Argininosuccinate lyase
APY29_09930	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
APY29_09950	COG1294	oxidase, subunit
APY29_09960	COG4988	ABC transporter
APY29_09965	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
APY29_09970	COG1278	Cold shock
APY29_09975	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
APY29_09995	COG1138	Cytochrome C-type biogenesis protein
APY29_10000	COG2332	Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH
APY29_10020	COG4133	protoheme IX ABC transporter activity
APY29_10025	COG0436	Aminotransferase
APY29_10045	COG1187	pseudouridine synthase activity
APY29_10050	COG1386	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpA that pull DNA away from mid-cell into both cell halves
APY29_10055	COG1354	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpB that pull DNA away from mid-cell into both cell halves
APY29_10060	COG2350	Protein conserved in bacteria
APY29_10090	COG1175	transmembrane transport
APY29_10095	COG0395	ABC-type sugar transport system, permease component
APY29_10120	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
APY29_10125	COG2957	Belongs to the agmatine deiminase family
APY29_10135	COG0257	Belongs to the bacterial ribosomal protein bL36 family
APY29_10140	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
APY29_10145	COG0539	negative regulation of cytoplasmic translation
APY29_10150	COG0776	regulation of translation
APY29_10160	COG2956	Modulates cellular lipopolysaccharide (LPS) levels by regulating LpxC, which is involved in lipid A biosynthesis. May act by modulating the proteolytic activity of FtsH towards LpxC. May also coordinate assembly of proteins involved in LPS synthesis at the plasma membrane
APY29_10165	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
APY29_10175	COG1210	Utp--glucose-1-phosphate uridylyltransferase
APY29_10180	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
APY29_10180	COG0475	glutathione-regulated potassium exporter activity
APY29_10190	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
APY29_10200	COG0518	GMP synthase (glutamine-hydrolyzing) activity
APY29_10200	COG0519	Catalyzes the synthesis of GMP from XMP
APY29_10205	COG0582	viral genome integration into host DNA
APY29_10255	COG0667	Aldo Keto reductase
APY29_10275	COG2801	Transposase and inactivated derivatives
APY29_10290	COG4962	Type ii secretion system protein e
APY29_10305	COG3451	type IV secretory pathway VirB4
APY29_10320	COG3846	protein secretion by the type IV secretion system
APY29_10345	COG3002	Belongs to the UPF0753 family
APY29_10350	COG0583	DNA-binding transcription factor activity
APY29_10370	COG2197	response regulator
APY29_10385	COG1335	isochorismatase
APY29_10395	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
APY29_10400	COG0590	tRNA wobble adenosine to inosine editing
APY29_10405	COG1321	iron dependent repressor
APY29_10410	COG1914	H( )-stimulated, divalent metal cation uptake system
APY29_10430	COG2814	Major facilitator Superfamily
APY29_10440	COG0668	transmembrane transport
APY29_10450	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
APY29_10465	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_10470	COG1183	phosphatidylcholine synthase activity
APY29_10480	COG3243	poly(R)-hydroxyalkanoic acid synthase
APY29_10495	COG0723	plastoquinol--plastocyanin reductase activity
APY29_10495	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_10505	COG2183	response to ionizing radiation
APY29_10510	COG2205	protein histidine kinase activity
APY29_10510	COG0784	Response regulator, receiver
APY29_10575	COG2801	Transposase and inactivated derivatives
APY29_10580	COG2963	transposase activity
APY29_10585	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_10590	COG0800	Aldolase
APY29_10595	COG0129	dihydroxy-acid dehydratase activity
APY29_10600	COG0363	glucosamine-6-phosphate deaminase activity
APY29_10605	COG0837	glucose binding
APY29_10610	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
APY29_10630	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
APY29_10645	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
APY29_10650	COG2938	An FAD assembly protein, which accelerates covalent attachment of the cofactor into other proteins. Plays an essential role in the assembly of succinate dehydrogenase (SDH, respiratory complex II), an enzyme complex that is a component of both the tricarboxylic acid cycle and the electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol. Required for flavinylation (covalent attachment of FAD) of the flavoprotein subunit SdhA of SDH
APY29_10660	COG4591	ABC-type transport system involved in lipoprotein release permease component
APY29_10665	COG1136	(ABC) transporter
APY29_10680	COG0811	peptide transport
APY29_10690	COG1132	(ABC) transporter
APY29_10695	COG1663	tetraacyldisaccharide 4'-kinase activity
APY29_10700	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
APY29_10705	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
APY29_10715	COG0322	excinuclease ABC activity
APY29_10720	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
APY29_10740	COG0582	viral genome integration into host DNA
APY29_10760	COG1074	ATP-dependent DNA helicase activity
APY29_10765	COG3593	DNA synthesis involved in DNA repair
APY29_10895	COG0477	Major facilitator Superfamily
APY29_10900	COG0583	DNA-binding transcription factor activity
APY29_11025	COG2826	transposase and inactivated derivatives, IS30 family
APY29_11090	COG0270	DNA (cytosine-5-)-methyltransferase activity
APY29_11095	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
APY29_11100	COG0629	single-stranded DNA binding
APY29_11135	COG1192	Involved in chromosome partitioning
APY29_11160	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
APY29_11250	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
APY29_11280	COG1530	ribonuclease E activity
APY29_11290	COG3064	Membrane
APY29_11295	COG0428	transporter
APY29_11305	COG2154	pterin-4-alpha-carbinolamine dehydratase
APY29_11310	COG0316	Belongs to the HesB IscA family
APY29_11310	COG0694	Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins
APY29_11425	COG1238	metal cluster binding
APY29_11455	COG3279	Response regulator of the LytR AlgR family
APY29_11480	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_11510	COG4566	intracellular signal transduction
APY29_11520	COG5001	Diguanylate cyclase
APY29_11535	COG3685	Protein conserved in bacteria
APY29_11555	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
APY29_11555	COG1648	precorrin-2 dehydrogenase activity
APY29_11565	COG0746	molybdenum cofactor guanylyltransferase activity
APY29_11570	COG0303	'Molybdopterin
APY29_11580	COG0708	Exodeoxyribonuclease III
APY29_11595	COG2801	Transposase and inactivated derivatives
APY29_11685	COG4644	lycopene metabolic process
APY29_11720	COG4456	Virulence-associated protein
APY29_11730	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
APY29_11870	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
APY29_11875	COG0303	'Molybdopterin
APY29_11880	COG1160	GTP binding
APY29_11885	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
APY29_11895	COG1426	Protein conserved in bacteria
APY29_11905	COG0820	rRNA (adenine-C2-)-methyltransferase activity
APY29_11910	COG0105	UTP biosynthetic process
APY29_11920	COG1024	Enoyl-CoA hydratase
APY29_11920	COG1250	3-hydroxyacyl-CoA dehydrogenase
APY29_11925	COG0183	Belongs to the thiolase family
APY29_11930	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
APY29_11935	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
APY29_11945	COG2834	Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane)
APY29_11955	COG1674	ftsk spoiiie
APY29_11960	COG0492	ferredoxin-NADP+ reductase activity
APY29_11970	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
APY29_11975	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
APY29_11980	COG0542	response to heat
APY29_11985	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
APY29_11995	COG0482	sulfurtransferase activity
APY29_12000	COG2915	High frequency lysogenization protein hflD homolog
APY29_12030	COG5002	protein histidine kinase activity
APY29_12050	COG0835	chemotaxis
APY29_12050	COG0784	Response regulator, receiver
APY29_12060	COG1558	bacterial-type flagellum-dependent cell motility
APY29_12065	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
APY29_12070	COG1749	Flagellar hook protein flgE
APY29_12075	COG4787	bacterial-type flagellum-dependent cell motility
APY29_12080	COG4786	Flagellar basal body rod
APY29_12085	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
APY29_12090	COG1706	bacterial-type flagellum-dependent cell motility
APY29_12095	COG1705	Flagellar rod assembly protein muramidase FlgJ
APY29_12095	COG3951	Flagellar rod assembly protein muramidase FlgJ
APY29_12105	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
APY29_12110	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
APY29_12115	COG1345	Required for morphogenesis and for the elongation of the flagellar filament by facilitating polymerization of the flagellin monomers at the tip of growing filament. Forms a capping structure, which prevents flagellin subunits (transported through the central channel of the flagellum) from leaking out without polymerization at the distal end
APY29_12145	COG2201	protein-glutamate methylesterase activity
APY29_12150	COG2204	response regulator
APY29_12165	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
APY29_12170	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_12175	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_12215	COG2801	Transposase and inactivated derivatives
APY29_12225	COG1677	Flagellar hook-basal body complex protein FliE
APY29_12275	COG3190	flagellar
APY29_12285	COG1987	bacterial-type flagellum assembly
APY29_12290	COG1684	flagellar biosynthetic protein fliR
APY29_12295	COG5001	Diguanylate cyclase
APY29_12295	COG3300	MHYT domain
APY29_12305	COG3300	MHYT domain
APY29_12305	COG5001	Diguanylate cyclase
APY29_12320	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
APY29_12330	COG0455	bacterial-type flagellum organization
APY29_12350	COG0643	Histidine kinase
APY29_12350	COG2198	Histidine kinase
APY29_12365	COG2801	Transposase and inactivated derivatives
APY29_12370	COG2963	transposase activity
APY29_12375	COG2801	Transposase and inactivated derivatives
APY29_12405	COG2963	transposase activity
APY29_12410	COG2801	Transposase and inactivated derivatives
APY29_12425	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
APY29_12430	COG1360	Flagellar Motor Protein
APY29_12435	COG1192	Involved in chromosome partitioning
APY29_12440	COG0835	chemotaxis
APY29_12450	COG0745	RESPONSE REGULATOR receiver
APY29_12460	COG0840	transmembrane signaling receptor activity
APY29_12470	COG0840	transmembrane signaling receptor activity
APY29_12470	COG0840	transmembrane signaling receptor activity
APY29_12475	COG0840	transmembrane signaling receptor activity
APY29_12485	COG0840	transmembrane signaling receptor activity
APY29_12490	COG0840	transmembrane signaling receptor activity
APY29_12495	COG0840	transmembrane signaling receptor activity
APY29_12510	COG0840	transmembrane signaling receptor activity
APY29_12515	COG0840	transmembrane signaling receptor activity
APY29_12520	COG0840	transmembrane signaling receptor activity
APY29_12525	COG0840	transmembrane signaling receptor activity
APY29_12535	COG0835	chemotaxis
APY29_12545	COG0840	transmembrane signaling receptor activity
APY29_12555	COG1871	Probably deamidates glutamine residues to glutamate on methyl-accepting chemotaxis receptors (MCPs), playing an important role in chemotaxis
APY29_12560	COG2201	protein-glutamate methylesterase activity
APY29_12600	COG0318	PFAM AMP-dependent synthetase and ligase
APY29_12605	COG1024	Enoyl-CoA hydratase
APY29_12610	COG2205	protein histidine kinase activity
APY29_12610	COG2198	Histidine kinase
APY29_12610	COG0784	Response regulator, receiver
APY29_12620	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
APY29_12625	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
APY29_12630	COG3279	Response regulator of the LytR AlgR family
APY29_12635	COG2801	Transposase and inactivated derivatives
APY29_12640	COG2963	transposase activity
APY29_12675	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
APY29_12685	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
APY29_12690	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
APY29_12700	COG0505	Belongs to the CarA family
APY29_12705	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
APY29_12710	COG2258	MOSC domain
APY29_12715	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
APY29_12760	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
APY29_12780	COG0277	FAD linked oxidase domain protein
APY29_12785	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
APY29_12795	COG0531	amino acid
APY29_12800	COG0531	amino acid
APY29_12805	COG0235	Class ii aldolase
APY29_12810	COG1791	Catalyzes 2 different reactions between oxygene and the acireductone 1,2-dihydroxy-3-keto-5-methylthiopentene (DHK-MTPene) depending upon the metal bound in the active site. Fe-containing acireductone dioxygenase (Fe-ARD) produces formate and 2-keto-4- methylthiobutyrate (KMTB), the alpha-ketoacid precursor of methionine in the methionine recycle pathway. Ni-containing acireductone dioxygenase (Ni-ARD) produces methylthiopropionate, carbon monoxide and formate, and does not lie on the methionine recycle pathway
APY29_12815	COG4229	Bifunctional enzyme that catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into the intermediate 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P), which is then dephosphorylated to form the acireductone 1,2-dihydroxy-3-keto-5-methylthiopentene (DHK- MTPene)
APY29_12830	COG0140	phosphoribosyl-ATP diphosphatase activity
APY29_12830	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
APY29_12835	COG0107	imidazoleglycerol-phosphate synthase activity
APY29_12840	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
APY29_12845	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
APY29_12850	COG0131	Imidazoleglycerol-phosphate dehydratase
APY29_12850	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
APY29_12855	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
APY29_12860	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
APY29_12865	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
APY29_12875	COG0124	histidyl-tRNA synthetase
APY29_12880	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
APY29_12890	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
APY29_12935	COG0726	polysaccharide deacetylase
APY29_12935	COG1649	PFAM Uncharacterised BCR, COG1649
APY29_12940	COG1215	transferase activity, transferring glycosyl groups
APY29_12955	COG1012	belongs to the aldehyde dehydrogenase family
APY29_12970	COG0167	dihydroorotate dehydrogenase activity
APY29_12975	COG0812	UDP-N-acetylmuramate dehydrogenase activity
APY29_12980	COG0697	spore germination
APY29_12985	COG1794	racemase activity, acting on amino acids and derivatives
APY29_12995	COG0671	phosphoesterase, PA-phosphatase related
APY29_13000	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
APY29_13010	COG4567	Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain
APY29_13015	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_13020	COG2203	Gaf domain
APY29_13020	COG3706	GGDEF domain
APY29_13020	COG4251	negative regulation of phosphorylation
APY29_13020	COG5001	Diguanylate cyclase
APY29_13030	COG1472	Belongs to the glycosyl hydrolase 3 family
APY29_13050	COG0166	Belongs to the GPI family
APY29_13055	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
APY29_13060	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
APY29_13065	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
APY29_13085	COG1469	GTP cyclohydrolase I activity
APY29_13090	COG0860	N-Acetylmuramoyl-L-alanine amidase
APY29_13105	COG0477	Major facilitator Superfamily
APY29_13110	COG2115	Belongs to the xylose isomerase family
APY29_13115	COG1070	Carbohydrate kinase
APY29_13125	COG1501	Belongs to the glycosyl hydrolase 31 family
APY29_13170	COG0800	Aldolase
APY29_13175	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_13185	COG3734	2-keto-3-deoxy-galactonokinase
APY29_13190	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
APY29_13200	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
APY29_13215	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
APY29_13220	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
APY29_13235	COG0351	phosphomethylpyrimidine kinase
APY29_13260	COG0583	DNA-binding transcription factor activity
APY29_13270	COG1741	Belongs to the pirin family
APY29_13285	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
APY29_13290	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
APY29_13295	COG2137	regulation of response to DNA damage stimulus
APY29_13300	COG0468	Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage
APY29_13305	COG1974	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair
APY29_13315	COG1546	Belongs to the CinA family
APY29_13320	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
APY29_13325	COG1923	regulation of RNA biosynthetic process
APY29_13330	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)
APY29_13335	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
APY29_13340	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
APY29_13345	COG0293	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit
APY29_13350	COG1534	Rna-binding protein
APY29_13365	COG1238	metal cluster binding
APY29_13370	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
APY29_13375	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
APY29_13380	COG2840	Smr protein MutS2
APY29_13385	COG0585	pseudouridine synthase activity
APY29_13390	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
APY29_13400	COG2919	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic
APY29_13405	COG0148	phosphopyruvate hydratase activity
APY29_13415	COG2877	3-deoxy-8-phosphooctulonate synthase activity
APY29_13420	COG0504	CTP synthase activity
APY29_13445	COG0306	phosphate transporter
APY29_13455	COG1253	flavin adenine dinucleotide binding
APY29_13470	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
APY29_13475	COG0477	Major facilitator Superfamily
APY29_13480	COG1132	(ABC) transporter
APY29_13485	COG1136	(ABC) transporter
APY29_13510	COG2264	protein methyltransferase activity
APY29_13540	COG2244	polysaccharide biosynthetic process
APY29_13605	COG2963	transposase activity
APY29_13615	COG2951	lytic endotransglycosylase activity
APY29_13620	COG4644	lycopene metabolic process
APY29_13630	COG2801	Transposase and inactivated derivatives
APY29_13655	COG1595	DNA-templated transcription, initiation
APY29_13670	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
APY29_13680	COG2332	Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH
APY29_13690	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
APY29_13705	COG4191	Histidine kinase
APY29_13705	COG0784	Response regulator, receiver
APY29_13715	COG5002	protein histidine kinase activity
APY29_13715	COG2205	protein histidine kinase activity
APY29_13715	COG0784	Response regulator, receiver
APY29_13745	COG0840	transmembrane signaling receptor activity
APY29_13760	COG0583	DNA-binding transcription factor activity
APY29_13765	COG1182	Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity
APY29_13770	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)
APY29_13785	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
APY29_13795	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
APY29_13800	COG2041	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. The catalytic subunit MsrP is non-stereospecific, being able to reduce both (R-) and (S-) diastereoisomers of methionine sulfoxide
APY29_13805	COG2717	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. MsrQ provides electrons for reduction to the reductase catalytic subunit MsrP, using the quinone pool of the respiratory chain
APY29_13845	COG1228	amidohydrolase
APY29_13850	COG2986	histidine ammonia-lyase
APY29_13860	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
APY29_13870	COG4993	Dehydrogenase
APY29_13880	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
APY29_13890	COG2269	With EpmB is involved in the beta-lysylation step of the post-translational modification of translation elongation factor P (EF-P). Catalyzes the ATP-dependent activation of (R)-beta-lysine produced by EpmB, forming a lysyl-adenylate, from which the beta- lysyl moiety is then transferred to the epsilon-amino group of a conserved specific lysine residue in EF-P
APY29_13895	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
APY29_13900	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
APY29_13915	COG3115	cell septum assembly
APY29_13925	COG0359	binds to the 23S rRNA
APY29_13930	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
APY29_13935	COG0360	Binds together with S18 to 16S ribosomal RNA
APY29_13940	COG0316	Belongs to the HesB IscA family
APY29_13945	COG0017	Asparaginyl-tRNA synthetase
APY29_13965	COG2808	Putative FMN-binding domain
APY29_14035	COG0288	reversible hydration of carbon dioxide
APY29_14040	COG0662	Cupin 2, conserved barrel domain protein
APY29_14050	COG3844	kynureninase activity
APY29_14055	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_14060	COG2925	Exonuclease
APY29_14085	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
APY29_14090	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
APY29_14090	COG0116	Belongs to the methyltransferase superfamily
APY29_14130	COG0494	nUDIX hydrolase
APY29_14140	COG1024	Enoyl-CoA hydratase
APY29_14150	COG0177	DNA repair enzyme that has both DNA N-glycosylase activity and AP-lyase activity. The DNA N-glycosylase activity releases various damaged pyrimidines from DNA by cleaving the N- glycosidic bond, leaving an AP (apurinic apyrimidinic) site. The AP-lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate
APY29_14155	COG0659	secondary active sulfate transmembrane transporter activity
APY29_14180	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
APY29_14185	COG0573	inorganic phosphate transmembrane transporter activity
APY29_14190	COG0581	inorganic phosphate transmembrane transporter activity
APY29_14195	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
APY29_14200	COG0704	Plays a role in the regulation of phosphate uptake
APY29_14210	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
APY29_14225	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
APY29_14235	COG0557	exoribonuclease II activity
APY29_14250	COG1960	acyl-CoA dehydrogenase activity
APY29_14260	COG1410	methionine synthase
APY29_14260	COG0646	methionine synthase
APY29_14265	COG1410	methionine synthase
APY29_14265	COG0646	methionine synthase
APY29_14275	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
APY29_14300	COG2900	Belongs to the SlyX family
APY29_14315	COG0386	Belongs to the glutathione peroxidase family
APY29_14325	COG1725	Transcriptional regulator
APY29_14330	COG1131	(ABC) transporter
APY29_14360	COG1253	flavin adenine dinucleotide binding
APY29_14380	COG2850	peptidyl-arginine hydroxylation
APY29_14415	COG1132	(ABC) transporter
APY29_14420	COG0583	DNA-binding transcription factor activity
APY29_14450	COG2240	Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP
APY29_14455	COG0484	heat shock protein binding
APY29_14460	COG0443	Heat shock 70 kDa protein
APY29_14465	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
APY29_14470	COG1420	regulation of RNA biosynthetic process
APY29_14475	COG0497	DNA recombination
APY29_14485	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
APY29_14500	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
APY29_14540	COG2801	Transposase and inactivated derivatives
APY29_14555	COG3706	GGDEF domain
APY29_14565	COG3706	GGDEF domain
APY29_14600	COG0583	DNA-binding transcription factor activity
APY29_14610	COG0415	Belongs to the DNA photolyase family
APY29_14615	COG0305	Participates in initiation and elongation during chromosome replication
APY29_14625	COG0367	asparagine synthase
APY29_14645	COG1960	acyl-CoA dehydrogenase activity
APY29_14665	COG0084	hydrolase, TatD family'
APY29_14670	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
APY29_14730	COG0386	Belongs to the glutathione peroxidase family
APY29_14735	COG0339	signal peptide processing
APY29_14765	COG3104	oligopeptide transport
APY29_14785	COG2814	Major facilitator Superfamily
APY29_14790	COG1566	PFAM secretion protein HlyD family protein
APY29_14815	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
APY29_14830	COG4774	siderophore transport
APY29_14840	COG0367	asparagine synthase
APY29_14845	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
APY29_14850	COG1393	Belongs to the ArsC family
APY29_14860	COG2844	Modifies, by uridylylation and deuridylylation, the PII regulatory proteins (GlnB and homologs), in response to the nitrogen status of the cell that GlnD senses through the glutamine level. Under low glutamine levels, catalyzes the conversion of the PII proteins and UTP to PII-UMP and PPi, while under higher glutamine levels, GlnD hydrolyzes PII-UMP to PII and UMP (deuridylylation). Thus, controls uridylylation state and activity of the PII proteins, and plays an important role in the regulation of nitrogen
APY29_14865	COG0024	Methionine aminopeptidase
APY29_14900	COG0052	Belongs to the universal ribosomal protein uS2 family
APY29_14905	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
APY29_14910	COG3706	GGDEF domain
APY29_14910	COG0745	RESPONSE REGULATOR receiver
APY29_14915	COG0528	UMP kinase activity
APY29_14920	COG0233	cytoplasmic translational termination
APY29_14925	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
APY29_14930	COG0575	Belongs to the CDS family
APY29_14935	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
APY29_14940	COG0750	zinc metalloprotease
APY29_14955	COG1044	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
APY29_14960	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APY29_14965	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
APY29_14970	COG0763	Condensation of UDP-2,3-diacylglucosamine and 2,3- diacylglucosamine-1-phosphate to form lipid A disaccharide, a precursor of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
APY29_14975	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
APY29_14985	COG0825	malonyl-CoA metabolic process
APY29_15020	COG1695	Transcriptional regulator
APY29_15040	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
APY29_15050	COG2040	homocysteine
APY29_15055	COG0833	amino acid
APY29_15060	COG0346	lactoylglutathione lyase activity
APY29_15065	COG1131	(ABC) transporter
APY29_15080	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
APY29_15080	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
APY29_15090	COG2878	Part of a membrane complex involved in electron transport
APY29_15110	COG1595	DNA-templated transcription, initiation
APY29_15135	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
APY29_15150	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
APY29_15155	COG0251	oxidation-reduction process
APY29_15165	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
APY29_15165	COG0392	lysyltransferase activity
APY29_15200	COG2814	Major facilitator Superfamily
APY29_15210	COG2824	Alkylphosphonate utilization operon protein PhnA
APY29_15220	COG1047	Peptidyl-prolyl cis-trans
APY29_15225	COG1077	Cell shape determining protein MreB Mrl
APY29_15245	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
APY29_15255	COG5487	UPF0391 membrane protein
APY29_15270	COG1451	nucleotide metabolic process
APY29_15290	COG0183	Belongs to the thiolase family
APY29_15305	COG3706	GGDEF domain
APY29_15305	COG0745	RESPONSE REGULATOR receiver
APY29_15320	COG1793	dna ligase
APY29_15320	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
APY29_15330	COG1793	dna ligase
APY29_15335	COG1201	RNA secondary structure unwinding
APY29_15345	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_15350	COG1278	Cold shock
APY29_15355	COG0005	The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate
APY29_15365	COG1472	Belongs to the glycosyl hydrolase 3 family
APY29_15370	COG3046	protein related to deoxyribodipyrimidine photolyase
APY29_15375	COG3380	Catalyzes the oxidation of the 1,2-dihydro- and 1,6- dihydro- isomeric forms of beta-NAD(P) back to beta-NAD(P) . May serve to protect primary metabolism dehydrogenases from inhibition by the 1,2-dihydro- and 1,6-dihydro-beta-NAD(P) isomers
APY29_15380	COG2761	dithiol-disulfide isomerase involved in polyketide biosynthesis
APY29_15390	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
APY29_15400	COG1381	Involved in DNA repair and RecF pathway recombination
APY29_15405	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
APY29_15410	COG0571	ribonuclease III activity
APY29_15425	COG0481	GTPase activity
APY29_15430	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
APY29_15445	COG1250	3-hydroxyacyl-CoA dehydrogenase
APY29_15445	COG1024	Enoyl-CoA hydratase
APY29_15470	COG1960	acyl-CoA dehydrogenase activity
APY29_15490	COG3867	Arabinogalactan endo-beta-1,4-galactanase
APY29_15495	COG3250	beta-galactosidase activity
APY29_15540	COG3209	COG3209 Rhs family protein
APY29_15560	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
APY29_15570	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
APY29_15595	COG0534	Mate efflux family protein
APY29_15600	COG0335	large ribosomal subunit rRNA binding
APY29_15605	COG0336	Belongs to the RNA methyltransferase TrmD family
APY29_15610	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
APY29_15615	COG0228	four-way junction DNA binding
APY29_15620	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
APY29_15630	COG0541	Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY
APY29_15635	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
APY29_15670	COG0784	Response regulator, receiver
APY29_15670	COG4191	Histidine kinase
APY29_15675	COG3850	Histidine kinase
APY29_15675	COG3437	response regulator, receiver
APY29_15675	COG2205	protein histidine kinase activity
APY29_15675	COG4999	Histidine kinase
APY29_15680	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
APY29_15690	COG3706	GGDEF domain
APY29_15690	COG0745	RESPONSE REGULATOR receiver
APY29_15695	COG5507	3-demethylubiquinone-9 3-methyltransferase
APY29_15705	COG4771	TonB-dependent receptor
APY29_15730	COG2172	sigma factor antagonist activity
APY29_15735	COG1366	Belongs to the anti-sigma-factor antagonist family
APY29_15740	COG1366	Belongs to the anti-sigma-factor antagonist family
APY29_15750	COG0326	Molecular chaperone. Has ATPase activity
APY29_15755	COG2207	Transcriptional regulator
APY29_15765	COG3152	Membrane
APY29_15780	COG3125	oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor
APY29_15785	COG1845	cytochrome c oxidase, subunit III
APY29_15790	COG0843	Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B
APY29_15835	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_15835	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
APY29_15940	COG0761	Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis
APY29_15945	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
APY29_15950	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)
APY29_15955	COG0196	riboflavin kinase activity
APY29_15960	COG0728	peptidoglycan biosynthetic process
APY29_15965	COG0268	Binds directly to 16S ribosomal RNA
APY29_15970	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
APY29_15975	COG0211	Belongs to the bacterial ribosomal protein bL27 family
APY29_15980	COG0261	This protein binds to 23S rRNA in the presence of protein L20
APY29_15985	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
APY29_15990	COG0824	Thioesterase
APY29_16005	COG1946	Acyl-CoA thioesterase
APY29_16030	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
APY29_16040	COG0027	Involved in the de novo purine biosynthesis. Catalyzes the transfer of formate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR). Formate is provided by PurU via hydrolysis of 10-formyl-tetrahydrofolate
APY29_16065	COG0122	3-methyladenine DNA glycosylase 8-oxoguanine DNA glycosylase
APY29_16080	COG2197	response regulator
APY29_16085	COG4585	Histidine kinase
APY29_16100	COG0850	regulation of cytokinetic process
APY29_16105	COG2894	cell division
APY29_16110	COG0851	Prevents the cell division inhibition by proteins MinC and MinD at internal division sites while permitting inhibition at polar sites. This ensures cell division at the proper site by restricting the formation of a division septum at the midpoint of the long axis of the cell
APY29_16120	COG0642	Histidine kinase
APY29_16125	COG0745	RESPONSE REGULATOR receiver
APY29_16140	COG2194	sulfuric ester hydrolase activity
APY29_16155	COG2814	Major facilitator Superfamily
APY29_16160	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
APY29_16160	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
APY29_16170	COG0656	L-ascorbic acid biosynthetic process
APY29_16175	COG0753	catalase activity
APY29_16210	COG1917	Cupin 2, conserved barrel domain protein
APY29_16210	COG2207	Transcriptional regulator
APY29_16240	COG0823	Involved in the tonB-independent uptake of proteins
APY29_16240	COG1506	peptidase
APY29_16255	COG1297	OPT oligopeptide transporter protein
APY29_16270	COG0587	DNA-directed DNA polymerase activity
APY29_16285	COG1974	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair
APY29_16320	COG2080	2 iron, 2 sulfur cluster binding
APY29_16325	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
APY29_16330	COG1529	Aldehyde oxidase and xanthine dehydrogenase
APY29_16370	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_16385	COG3537	Alpha-1,2-mannosidase
APY29_16390	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_16405	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
APY29_16410	COG0328	RNA-DNA hybrid ribonuclease activity
APY29_16410	COG0406	alpha-ribazole phosphatase activity
APY29_16415	COG1309	transcriptional regulator
APY29_16430	COG2189	Belongs to the N(4) N(6)-methyltransferase family
APY29_16440	COG1196	nuclear chromosome segregation
APY29_16445	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
APY29_16470	COG1309	transcriptional regulator
APY29_16475	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_16485	COG0308	aminopeptidase N
APY29_16490	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
APY29_16500	COG0330	HflC and HflK could
APY29_16505	COG0330	HflC and HflK could
APY29_16525	COG0678	peroxiredoxin activity
APY29_16535	COG4953	penicillin-binding protein 1C
APY29_16550	COG2373	Large extracellular alpha-helical protein
APY29_16590	COG3829	transcription factor binding
APY29_16615	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
APY29_16620	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
APY29_16630	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
APY29_16635	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_16650	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
APY29_16655	COG0333	Belongs to the bacterial ribosomal protein bL32 family
APY29_16660	COG1399	metal-binding, possibly nucleic acid-binding protein
APY29_16665	COG0424	maF-like protein
APY29_16685	COG0714	Associated with various cellular activities
APY29_16705	COG0537	adenosine 5'-monophosphoramidase activity
APY29_16710	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
APY29_16715	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
APY29_16720	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
APY29_16730	COG0314	molybdopterin synthase activity
APY29_16735	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
APY29_16740	COG0315	cyclic pyranopterin monophosphate synthase activity
APY29_16750	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
APY29_16755	COG1234	tRNA 3'-trailer cleavage
APY29_16760	COG3642	lipopolysaccharide core region biosynthetic process
APY29_16765	COG0859	PFAM glycosyl transferase family 9
APY29_16780	COG0631	protein serine/threonine phosphatase activity
APY29_16785	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
APY29_16790	COG0328	RNA-DNA hybrid ribonuclease activity
APY29_16800	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_16810	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
APY29_16840	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
APY29_16845	COG0740	serine-type endopeptidase activity
APY29_16850	COG0544	peptidyl-prolyl cis-trans isomerase activity
APY29_16860	COG3852	Histidine kinase
APY29_16890	COG0473	3-isopropylmalate dehydrogenase activity
APY29_16905	COG4783	chaperone-mediated protein folding
APY29_16920	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
APY29_16935	COG0671	phosphoesterase, PA-phosphatase related
APY29_16940	COG2908	Hydrolyzes the pyrophosphate bond of UDP-2,3- diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate (lipid X) and UMP by catalyzing the attack of water at the alpha-P atom. Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
APY29_16950	COG3291	Pkd domain containing protein
APY29_16990	COG0285	dihydrofolate synthase activity
APY29_16995	COG0406	alpha-ribazole phosphatase activity
APY29_17020	COG1063	alcohol dehydrogenase
APY29_17030	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
APY29_17035	COG4208	sulfate ABC transporter
APY29_17040	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
APY29_17045	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
APY29_17050	COG0156	8-amino-7-oxononanoate synthase activity
APY29_17075	COG0604	alcohol dehydrogenase
APY29_17080	COG0446	pyridine nucleotide-disulphide oxidoreductase
APY29_17080	COG1902	pentaerythritol trinitrate reductase activity
APY29_17090	COG0625	glutathione transferase activity
APY29_17095	COG0039	L-malate dehydrogenase activity
APY29_17100	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
APY29_17125	COG3200	phospho-2-dehydro-3-deoxyheptonate aldolase
APY29_17140	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
APY29_17145	COG0203	ribosomal protein L17
APY29_17150	COG0202	RNA polymerase activity
APY29_17155	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
APY29_17160	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
APY29_17165	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
APY29_17170	COG0201	protein transport
APY29_17175	COG0200	Binds to the 23S rRNA
APY29_17180	COG1841	ribosomal large subunit assembly
APY29_17185	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
APY29_17190	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
APY29_17195	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
APY29_17200	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
APY29_17205	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
APY29_17210	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
APY29_17215	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
APY29_17220	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
APY29_17225	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
APY29_17230	COG0255	Belongs to the universal ribosomal protein uL29 family
APY29_17235	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
APY29_17240	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
APY29_17245	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
APY29_17250	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
APY29_17255	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
APY29_17260	COG0089	rRNA binding
APY29_17265	COG0088	Forms part of the polypeptide exit tunnel
APY29_17270	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
APY29_17275	COG0051	transcription antitermination factor activity, RNA binding
APY29_17280	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
APY29_17285	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
APY29_17290	COG0049	tRNA binding
APY29_17295	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
APY29_17300	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
APY29_17305	COG0085	RNA polymerase activity
APY29_17310	COG0222	ribosome binding
APY29_17315	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
APY29_17320	COG0081	regulation of translation
APY29_17325	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
APY29_17330	COG0250	Participates in transcription elongation, termination and antitermination
APY29_17335	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
APY29_17345	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
APY29_17365	COG0012	GTP binding
APY29_17370	COG0193	aminoacyl-tRNA hydrolase activity
APY29_17375	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
APY29_17380	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)
APY29_17390	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
APY29_17395	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
APY29_17405	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
APY29_17410	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
APY29_17420	COG0521	Mo-molybdopterin cofactor biosynthetic process
APY29_17435	COG1254	Belongs to the acylphosphatase family
APY29_17440	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
APY29_17445	COG1295	ribonuclease BN
APY29_17470	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
APY29_17475	COG1404	Belongs to the peptidase S8 family
APY29_17490	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
APY29_17505	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
APY29_17510	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
APY29_17530	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
APY29_17560	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
APY29_17560	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
APY29_17580	COG2890	protein-(glutamine-N5) methyltransferase activity
APY29_17590	COG3634	alkyl hydroperoxide reductase activity
APY29_17595	COG0583	DNA-binding transcription factor activity
APY29_17600	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
APY29_17605	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
APY29_17615	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
APY29_17625	COG2197	response regulator
APY29_17635	COG0745	RESPONSE REGULATOR receiver
APY29_17635	COG3706	GGDEF domain
APY29_17650	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)
APY29_17660	COG0697	spore germination
APY29_17695	COG3386	PFAM SMP-30 Gluconolaconase
APY29_17715	COG1024	Enoyl-CoA hydratase
APY29_17725	COG0318	PFAM AMP-dependent synthetase and ligase
APY29_17730	COG0583	DNA-binding transcription factor activity
APY29_17735	COG3384	dioxygenase
APY29_17765	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_17770	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_17780	COG2096	Adenosyltransferase
APY29_17785	COG0123	including yeast histone deacetylase and acetoin utilization protein
APY29_17795	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
APY29_17800	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
APY29_17805	COG1995	Catalyzes the NAD(P)-dependent oxidation of 4- (phosphohydroxy)-L-threonine (HTP) into 2-amino-3-oxo-4- (phosphohydroxy)butyric acid which spontaneously decarboxylates to form 3-amino-2-oxopropyl phosphate (AHAP)
APY29_17810	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
APY29_17815	COG2967	ApaG domain
APY29_17820	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
APY29_17840	COG0747	negative chemotaxis
APY29_17865	COG0431	NADPH-dependent FMN reductase
APY29_17870	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
APY29_17880	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
APY29_17885	COG1116	anion transmembrane transporter activity
APY29_17895	COG3829	transcription factor binding
APY29_17910	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
APY29_17915	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
APY29_17935	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
APY29_17960	COG4181	ATPase activity
APY29_17970	COG2175	clavaminate synthase activity
APY29_17980	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
APY29_17985	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
APY29_18005	COG4771	TonB-dependent receptor
APY29_18015	COG0667	Aldo Keto reductase
APY29_18020	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
APY29_18025	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
APY29_18035	COG0042	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines
APY29_18040	COG4106	trans-aconitate 2-methyltransferase activity
APY29_18050	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
APY29_18085	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
APY29_18095	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
APY29_18100	COG2226	methyltransferase
APY29_18130	COG0366	Alpha amylase catalytic
APY29_18155	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_18155	COG3321	synthase
APY29_18155	COG0604	alcohol dehydrogenase
APY29_18165	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
APY29_18175	COG0494	nUDIX hydrolase
APY29_18180	COG0653	protein targeting
APY29_18185	COG0739	heme binding
APY29_18195	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
APY29_18210	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
APY29_18215	COG1181	Belongs to the D-alanine--D-alanine ligase family
APY29_18220	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
APY29_18225	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)
APY29_18235	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
APY29_18240	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
APY29_18245	COG0769	Catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan
APY29_18255	COG3116	cell division
APY29_18260	COG0275	rRNA processing
APY29_18265	COG2001	Belongs to the MraZ family
APY29_18290	COG0792	nuclease activity
APY29_18295	COG1988	membrane-bound metal-dependent
APY29_18300	COG0277	FAD linked oxidase domain protein
APY29_18310	COG0745	RESPONSE REGULATOR receiver
APY29_18315	COG2205	protein histidine kinase activity
APY29_18335	COG2156	Part of the high-affinity ATP-driven potassium transport (or Kdp) system, which catalyzes the hydrolysis of ATP coupled with the electrogenic transport of potassium into the cytoplasm. This subunit acts as a catalytic chaperone that increases the ATP- binding affinity of the ATP-hydrolyzing subunit KdpB by the formation of a transient KdpB KdpC ATP ternary complex
APY29_18340	COG2216	Part of the high-affinity ATP-driven potassium transport (or Kdp) system, which catalyzes the hydrolysis of ATP coupled with the electrogenic transport of potassium into the cytoplasm. This subunit is responsible for energy coupling to the transport system
APY29_18345	COG2060	Part of the high-affinity ATP-driven potassium transport (or Kdp) system, which catalyzes the hydrolysis of ATP coupled with the electrogenic transport of potassium into the cytoplasm. This subunit binds and transports the potassium across the cytoplasmic membrane
APY29_18365	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
APY29_18370	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
APY29_18375	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
APY29_18405	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
APY29_18405	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
APY29_18415	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
APY29_18420	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
APY29_18430	COG0488	(ABC) transporter
APY29_18440	COG0697	spore germination
APY29_18450	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
APY29_18465	COG3791	Glutathione-dependent formaldehyde-activating
APY29_18490	COG0745	RESPONSE REGULATOR receiver
APY29_18495	COG2205	protein histidine kinase activity
APY29_18515	COG0218	Necessary for normal cell division and for the maintenance of normal septation
APY29_18530	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
APY29_18540	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
APY29_18545	COG1012	belongs to the aldehyde dehydrogenase family
APY29_18550	COG2303	Involved in the biosynthesis of the osmoprotectant glycine betaine. Catalyzes the oxidation of choline to betaine aldehyde and betaine aldehyde to glycine betaine at the same rate
APY29_18555	COG0617	tRNA 3'-terminal CCA addition
APY29_18565	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
APY29_18570	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
APY29_18575	COG1609	Transcriptional regulator
APY29_18600	COG3250	beta-galactosidase activity
APY29_18630	COG4795	General secretion pathway protein
APY29_18650	COG1459	type II secretion system
APY29_18705	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
APY29_18710	COG4191	Histidine kinase
APY29_18715	COG0784	Response regulator, receiver
APY29_18720	COG4251	negative regulation of phosphorylation
APY29_18725	COG2823	Periplasmic or secreted lipoprotein
APY29_18735	COG1023	phosphogluconate dehydrogenase (decarboxylating) activity
APY29_18770	COG1051	belongs to the nudix hydrolase family
APY29_18770	COG1056	cytidyltransferase-related domain
APY29_18780	COG0583	DNA-binding transcription factor activity
APY29_18795	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
APY29_18800	COG0321	lipoyl(octanoyl) transferase activity
APY29_18805	COG2921	Belongs to the UPF0250 family
APY29_18815	COG1686	Belongs to the peptidase S11 family
APY29_18825	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
APY29_18830	COG2951	lytic endotransglycosylase activity
APY29_18840	COG0772	Belongs to the SEDS family
APY29_18855	COG1792	Involved in formation and maintenance of cell shape
APY29_18860	COG1077	Cell shape determining protein MreB Mrl
APY29_18870	COG3284	Transcriptional regulator
APY29_18880	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
APY29_18920	COG0308	aminopeptidase N
APY29_18925	COG5001	Diguanylate cyclase
APY29_18925	COG3300	MHYT domain
APY29_18930	COG2226	methyltransferase
APY29_18955	COG1220	this subunit has chaperone activity. The binding of ATP and its subsequent hydrolysis by HslU are essential for unfolding of protein substrates subsequently hydrolyzed by HslV. HslU recognizes the N-terminal part of its protein substrates and unfolds these before they are guided to HslV for hydrolysis
APY29_18960	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
APY29_18965	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
APY29_18975	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
APY29_18985	COG2832	Protein of unknown function (DUF454)
APY29_18995	COG0436	Aminotransferase
APY29_19005	COG1505	serine-type exopeptidase activity
APY29_19030	COG0181	hydroxymethylbilane synthase activity
APY29_19040	COG3275	phosphorelay sensor kinase activity
APY29_19050	COG2943	transferase activity, transferring hexosyl groups
APY29_19065	COG3706	GGDEF domain
APY29_19070	COG0659	secondary active sulfate transmembrane transporter activity
APY29_19075	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_19075	COG5297	Belongs to the glycosyl hydrolase family 6
APY29_19080	COG0840	transmembrane signaling receptor activity
APY29_19085	COG5001	Diguanylate cyclase
APY29_19120	COG1626	Provides the cells with the ability to utilize trehalose at high osmolarity by splitting it into glucose molecules that can subsequently be taken up by the phosphotransferase-mediated uptake system
APY29_19130	COG0598	Magnesium transport protein CorA
APY29_19140	COG1113	amino acid transport
APY29_19155	COG0697	spore germination
APY29_19175	COG3706	GGDEF domain
APY29_19190	COG1506	peptidase
APY29_19190	COG0823	Involved in the tonB-independent uptake of proteins
APY29_19195	COG2409	Drug exporters of the RND superfamily
APY29_19220	COG0435	Glutathione S-transferase
APY29_19230	COG4221	oxidoreductase activity
APY29_19245	COG4221	oxidoreductase activity
APY29_19320	COG0546	phosphoglycolate phosphatase activity
APY29_19325	COG1802	Transcriptional regulator
APY29_19335	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
APY29_19340	COG1767	triphosphoribosyl-dephospho-CoA synthase activity
APY29_19360	COG3052	prosthetic group binding
APY29_19390	COG2353	YceI-like domain
APY29_19395	COG0778	Nitroreductase
APY29_19415	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
APY29_19420	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
APY29_19430	COG3386	PFAM SMP-30 Gluconolaconase
APY29_19445	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
APY29_19460	COG0459	protein refolding
APY29_19465	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
APY29_19470	COG2356	endonuclease I
APY29_19475	COG0300	oxidoreductase activity
APY29_19500	COG1324	tolerance protein
APY29_19510	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
APY29_19515	COG0511	ligase activity, forming carbon-carbon bonds
APY29_19525	COG0439	Biotin carboxylase
APY29_19550	COG2264	protein methyltransferase activity
APY29_19575	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
APY29_19580	COG4589	Belongs to the CDS family
APY29_19605	COG0671	phosphoesterase, PA-phosphatase related
APY29_19605	COG2453	phosphatase
APY29_19610	COG2267	carboxylic ester hydrolase activity
APY29_19615	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
APY29_19620	COG0138	bifunctional purine biosynthesis protein purh
APY29_19630	COG0151	Belongs to the GarS family
APY29_19640	COG1289	transmembrane transporter activity
APY29_19645	COG2814	Major facilitator Superfamily
APY29_19655	COG2814	Major facilitator Superfamily
APY29_19670	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
APY29_19690	COG0316	Belongs to the HesB IscA family
APY29_19730	COG1051	belongs to the nudix hydrolase family
APY29_19745	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
APY29_19750	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
APY29_19755	COG2941	Oxygenase that introduces the hydroxyl group at carbon five of 2-nonaprenyl-3-methyl-6-methoxy-1,4-benzoquinol resulting in the formation of 2-nonaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4- benzoquinol
APY29_19765	COG1586	Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine
APY29_19770	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
APY29_19780	COG0134	indole-3-glycerol-phosphate synthase activity
APY29_19785	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
APY29_19810	COG1597	lipid kinase activity
APY29_19815	COG0456	acetyltransferase
APY29_19830	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
APY29_19835	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
APY29_19855	COG3179	chitinase
APY29_19875	COG2111	Na H antiporter
APY29_19875	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
APY29_19880	COG1006	Multisubunit Na H antiporter MnhC subunit
APY29_19885	COG0651	ATP synthesis coupled electron transport
APY29_19895	COG2212	antiporter activity
APY29_19900	COG1320	monovalent cation:proton antiporter activity
APY29_19915	COG3508	Involved in the catabolism of homogentisate (2,5- dihydroxyphenylacetate or 2,5-OH-PhAc), a central intermediate in the degradation of phenylalanine and tyrosine. Catalyzes the oxidative ring cleavage of the aromatic ring of homogentisate to yield maleylacetoacetate
APY29_19935	COG3104	oligopeptide transport
APY29_19940	COG3483	tryptophan 2,3-dioxygenase activity
APY29_19950	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
APY29_19965	COG0508	dehydrogenase complex catalyzes the overall conversion of
APY29_19970	COG0513	Belongs to the DEAD box helicase family
APY29_19980	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_19985	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_20020	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_20025	COG0702	epimerase
APY29_20050	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
APY29_20055	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
APY29_20060	COG0297	glycogen (starch) synthase activity
APY29_20065	COG0745	RESPONSE REGULATOR receiver
APY29_20065	COG3706	GGDEF domain
APY29_20070	COG2354	Protein conserved in bacteria
APY29_20075	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
APY29_20080	COG1368	sulfuric ester hydrolase activity
APY29_20085	COG1511	domain protein
APY29_20085	COG3264	Mechanosensitive ion channel
APY29_20160	COG1377	Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
APY29_20230	COG0382	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate
APY29_20235	COG1040	competence protein
APY29_20240	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
APY29_20245	COG0156	8-amino-7-oxononanoate synthase activity
APY29_20255	COG2267	carboxylic ester hydrolase activity
APY29_20295	COG0445	tRNA wobble uridine modification
APY29_20315	COG1414	Transcriptional regulator
APY29_20325	COG0599	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
APY29_20330	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
APY29_20340	COG3485	protocatechuate 3,4-dioxygenase
APY29_20355	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
APY29_20360	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
APY29_20385	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
APY29_20390	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
APY29_20455	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
APY29_20475	COG0129	dihydroxy-acid dehydratase activity
APY29_20490	COG2801	Transposase and inactivated derivatives
APY29_20540	COG1733	regulation of RNA biosynthetic process
APY29_20545	COG0702	epimerase
APY29_20585	COG0583	DNA-binding transcription factor activity
APY29_20590	COG1636	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
APY29_20605	COG1538	Outer membrane efflux protein
APY29_20615	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_20620	COG2205	protein histidine kinase activity
APY29_20625	COG0745	RESPONSE REGULATOR receiver
APY29_20645	COG1902	pentaerythritol trinitrate reductase activity
APY29_20650	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
APY29_20665	COG2814	Major facilitator Superfamily
APY29_20675	COG2963	transposase activity
APY29_20680	COG2801	Transposase and inactivated derivatives
APY29_20695	COG0084	hydrolase, TatD family'
APY29_20715	COG2252	PERMEase
APY29_20725	COG1957	nucleoside hydrolase
APY29_20760	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
APY29_20780	COG2072	flavoprotein involved in K transport
APY29_20785	COG2351	hydroxyisourate hydrolase activity
APY29_20790	COG4807	Protein conserved in bacteria
APY29_20795	COG1643	Atp-dependent helicase
APY29_20810	COG1187	pseudouridine synthase activity
APY29_20825	COG2130	NADP-dependent
APY29_20855	COG1764	response to oxidative stress
APY29_20860	COG1846	Transcriptional regulator
APY29_20865	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
APY29_20875	COG0697	spore germination
APY29_20950	COG1960	acyl-CoA dehydrogenase activity
APY29_20955	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
APY29_20985	COG3706	GGDEF domain
APY29_20990	COG2224	Isocitrate lyase
APY29_20995	COG2225	Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA
APY29_21005	COG0475	glutathione-regulated potassium exporter activity
APY29_21035	COG0339	signal peptide processing
APY29_21040	COG1446	asparaginase
APY29_21060	COG0564	pseudouridine synthase activity
APY29_21070	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
APY29_21080	COG1181	Belongs to the D-alanine--D-alanine ligase family
APY29_21095	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
APY29_21100	COG0318	PFAM AMP-dependent synthetase and ligase
APY29_21110	COG0596	Alpha beta hydrolase
APY29_21120	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
APY29_21135	COG0219	Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S- adenosyl-L-methionine to the 2'-OH of the wobble nucleotide
APY29_21160	COG2205	protein histidine kinase activity
APY29_21165	COG0028	Belongs to the TPP enzyme family
APY29_21175	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
APY29_21180	COG1952	One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA
APY29_21185	COG0607	Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS
APY29_21220	COG0183	Belongs to the thiolase family
APY29_21235	COG2032	superoxide dismutase activity
APY29_21240	COG2032	superoxide dismutase activity
APY29_21245	COG2204	response regulator
APY29_21250	COG3852	Histidine kinase
APY29_21255	COG0004	ammonium transporteR
APY29_21260	COG0347	Belongs to the P(II) protein family
APY29_21265	COG0174	glutamine synthetase
APY29_21270	COG1968	undecaprenyl-diphosphatase activity
APY29_21280	COG1881	PFAM PEBP family protein
APY29_21310	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_21320	COG2062	phosphohistidine phosphatase, SixA
APY29_21325	COG0489	protein tyrosine kinase activity
APY29_21350	COG1396	sequence-specific DNA binding
APY29_21370	COG1262	PFAM Formylglycine-generating sulfatase enzyme
APY29_21385	COG1125	glycine betaine transport
APY29_21400	COG1119	ATPase activity
APY29_21410	COG1752	Esterase of the alpha-beta hydrolase superfamily
APY29_21420	COG1522	sequence-specific DNA binding
APY29_21425	COG3186	Phenylalanine-4-hydroxylase
APY29_21440	COG2755	lipolytic protein G-D-S-L family
APY29_21450	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_21455	COG3717	Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate
APY29_21460	COG1609	Transcriptional regulator
APY29_21465	COG3507	Belongs to the glycosyl hydrolase 43 family
APY29_21480	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
APY29_21490	COG0657	acetylesterase activity
APY29_21490	COG2755	lipolytic protein G-D-S-L family
APY29_21510	COG2911	Protein conserved in bacteria
APY29_21515	COG0729	surface antigen
APY29_21520	COG4771	TonB-dependent receptor
APY29_21525	COG0457	Tetratricopeptide repeat
APY29_21535	COG0752	glycyl-tRNA synthetase alpha subunit
APY29_21540	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
APY29_21550	COG0518	GMP synthase (glutamine-hydrolyzing) activity
APY29_21550	COG0519	Catalyzes the synthesis of GMP from XMP
APY29_21560	COG0805	protein transport
APY29_21565	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
APY29_21570	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
APY29_21580	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
APY29_21600	COG2974	May be involved in recombination
APY29_21605	COG0037	tRNA processing
APY29_21610	COG2115	Belongs to the xylose isomerase family
APY29_21620	COG3661	Belongs to the glycosyl hydrolase 67 family
APY29_21630	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_21645	COG0246	Mannitol dehydrogenase
APY29_21685	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
APY29_21710	COG3386	PFAM SMP-30 Gluconolaconase
APY29_21720	COG3250	beta-galactosidase activity
APY29_21725	COG1904	glucuronate isomerase
APY29_21740	COG3693	PFAM glycoside hydrolase, family 10
APY29_21755	COG2211	Major facilitator Superfamily
APY29_21785	COG2963	transposase activity
APY29_21790	COG2801	Transposase and inactivated derivatives
APY29_21830	COG2937	Belongs to the GPAT DAPAT family
APY29_21865	COG0284	orotidine-5'-phosphate decarboxylase activity
APY29_21870	COG2503	HAD superfamily, subfamily IIIB (Acid phosphatase)
APY29_21875	COG3132	Protein of unknown function, DUF480
APY29_21890	COG0210	DNA helicase
APY29_21895	COG1435	thymidine kinase activity
APY29_21905	COG3131	Involved in the biosynthesis of osmoregulated periplasmic glucans (OPGs)
APY29_21915	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
APY29_21945	COG3135	benzoate transporter
APY29_21965	COG0676	glucose-6-phosphate 1-epimerase activity
APY29_21975	COG3012	SEC-C Motif Domain Protein
APY29_21980	COG0730	response to heat
APY29_22000	COG0302	gtp cyclohydrolase
APY29_22015	COG1566	PFAM secretion protein HlyD family protein
APY29_22025	COG1289	transmembrane transporter activity
APY29_22030	COG0477	Major facilitator Superfamily
APY29_22035	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_22055	COG4691	Plasmid stability protein
APY29_22070	COG1487	ribonuclease activity
APY29_22115	COG0439	Biotin carboxylase
APY29_22150	COG1074	ATP-dependent DNA helicase activity
APY29_22155	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
APY29_22170	COG1127	ABC transporter
APY29_22175	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
APY29_22180	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
APY29_22195	COG2853	Lipoprotein
APY29_22205	COG0386	Belongs to the glutathione peroxidase family
APY29_22215	COG1322	Protein conserved in bacteria
APY29_22220	COG0604	alcohol dehydrogenase
APY29_22225	COG0583	DNA-binding transcription factor activity
APY29_22235	COG0625	glutathione transferase activity
APY29_22245	COG0531	amino acid
APY29_22250	COG3537	Alpha-1,2-mannosidase
APY29_22260	COG3706	GGDEF domain
APY29_22280	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
APY29_22285	COG0861	Integral membrane protein TerC family
APY29_22295	COG0584	glycerophosphoryl diester phosphodiesterase
APY29_22310	COG0486	Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34
APY29_22315	COG0726	polysaccharide deacetylase
APY29_22325	COG0706	membrane insertase activity
APY29_22330	COG0594	ribonuclease P activity
APY29_22335	COG0230	Belongs to the bacterial ribosomal protein bL34 family
APY29_22345	COG4644	lycopene metabolic process
APY29_22390	COG4456	Virulence-associated protein
APY29_22405	COG2951	lytic endotransglycosylase activity
APY29_22425	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
APY29_22495	COG1192	Involved in chromosome partitioning
APY29_22590	COG1192	Involved in chromosome partitioning
APY29_22650	COG2801	Transposase and inactivated derivatives
APY29_22700	COG2801	Transposase and inactivated derivatives
APY29_22715	COG1192	Involved in chromosome partitioning