locus-tag	class	description
APY29_RS00005	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_RS00015	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_RS00020	COG0187	DNA topoisomerase II activity
APY29_RS00030	COG0501	Belongs to the peptidase M48B family
APY29_RS00060	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_RS00070	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_RS00105	COG2003	Belongs to the UPF0758 family
APY29_RS00180	COG0793	Belongs to the peptidase S41A family
APY29_RS00185	COG4942	peptidase
APY29_RS00195	COG2234	aminopeptidase activity
APY29_RS00205	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_RS00215	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_RS00225	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_RS00235	COG1064	alcohol dehydrogenase
APY29_RS00240	COG0493	'glutamate synthase
APY29_RS00245	COG0070	glutamate synthase
APY29_RS00245	COG0067	glutamate synthase
APY29_RS00245	COG0069	glutamate synthase activity
APY29_RS00295	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
APY29_RS00310	COG1922	lipopolysaccharide N-acetylmannosaminouronosyltransferase activity
APY29_RS00315	COG0438	transferase activity, transferring glycosyl groups
APY29_RS00315	COG0297	glycogen (starch) synthase activity
APY29_RS00335	COG0367	asparagine synthase
APY29_RS00365	COG1132	(ABC) transporter
APY29_RS00395	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_RS00490	COG1205	dead DEAH box helicase
APY29_RS00490	COG1111	helicase
APY29_RS00495	COG1272	protein, Hemolysin III
APY29_RS00515	COG0300	oxidoreductase activity
APY29_RS00520	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS00565	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
APY29_RS00570	COG3710	Transcriptional regulator
APY29_RS00590	COG2197	response regulator
APY29_RS00595	COG4585	Histidine kinase
APY29_RS00610	COG1304	FMN binding
APY29_RS00665	COG0662	Cupin 2, conserved barrel domain protein
APY29_RS00675	COG4772	TonB-dependent receptor
APY29_RS00685	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
APY29_RS00715	COG0714	Associated with various cellular activities
APY29_RS00765	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
APY29_RS00810	COG0366	Alpha amylase catalytic
APY29_RS00815	COG0366	Alpha amylase catalytic
APY29_RS00820	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_RS00920	COG3504	Conjugal transfer protein
APY29_RS00925	COG2948	multi-organism process
APY29_RS00990	COG3041	Addiction module toxin RelE StbE family
APY29_RS00995	COG3077	Addiction module antitoxin, RelB DinJ family
APY29_RS01025	COG1192	Involved in chromosome partitioning
APY29_RS01060	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_RS01070	COG3265	gluconokinase activity
APY29_RS01075	COG2211	Major facilitator Superfamily
APY29_RS01080	COG3459	Glycosyltransferase 36 associated
APY29_RS01095	COG2205	protein histidine kinase activity
APY29_RS01100	COG1971	Probably functions as a manganese efflux pump
APY29_RS01110	COG1414	Transcriptional regulator
APY29_RS01115	COG0738	Major facilitator superfamily
APY29_RS01120	COG3254	rhamnose metabolic process
APY29_RS01125	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_RS01135	COG0179	Fumarylacetoacetate (FAA) hydrolase
APY29_RS01140	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS01190	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_RS01200	COG3162	membrane
APY29_RS01205	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
APY29_RS01215	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_RS01225	COG1846	Transcriptional regulator
APY29_RS01225	COG1940	carbohydrate kinase activity
APY29_RS01230	COG0708	Exodeoxyribonuclease III
APY29_RS01245	COG2091	lysine biosynthetic process via aminoadipic acid
APY29_RS01255	COG3540	Alkaline phosphatase
APY29_RS01260	COG0357	Ribosomal RNA small subunit methyltransferase G
APY29_RS01280	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_RS01305	COG2159	amidohydrolase
APY29_RS01320	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_RS01325	COG0583	DNA-binding transcription factor activity
APY29_RS01330	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_RS01345	COG0210	DNA helicase
APY29_RS01525	COG0631	protein serine/threonine phosphatase activity
APY29_RS01530	COG0515	serine threonine protein kinase
APY29_RS01530	COG2815	serine threonine protein kinase
APY29_RS01570	COG0408	coproporphyrinogen oxidase activity
APY29_RS01590	COG4946	Tricorn protease homolog
APY29_RS01590	COG0823	Involved in the tonB-independent uptake of proteins
APY29_RS01590	COG1506	peptidase
APY29_RS01620	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
APY29_RS01635	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APY29_RS01675	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS01690	COG0463	Glycosyl transferase, family 2
APY29_RS01700	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
APY29_RS01705	COG3100	YcgL domain-containing protein
APY29_RS01720	COG3387	PFAM Glycoside hydrolase 15-related
APY29_RS01725	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
APY29_RS01745	COG2239	Acts as a magnesium transporter
APY29_RS01750	COG1042	CoA-binding domain protein
APY29_RS01750	COG0045	succinate-CoA ligase (ADP-forming) activity
APY29_RS01750	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
APY29_RS01770	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
APY29_RS01780	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
APY29_RS01815	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
APY29_RS01825	COG0842	Transport permease protein
APY29_RS01830	COG1131	(ABC) transporter
APY29_RS01835	COG0633	Ferredoxin
APY29_RS01835	COG0543	2 iron, 2 sulfur cluster binding
APY29_RS01880	COG1476	TRANSCRIPTIONal
APY29_RS01890	COG4555	ABC transporter
APY29_RS01930	COG0625	glutathione transferase activity
APY29_RS02005	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_RS02020	COG1199	ATP-dependent helicase activity
APY29_RS02050	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_RS02095	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_RS02095	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
APY29_RS02100	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
APY29_RS02130	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
APY29_RS02175	COG3237	CsbD-like
APY29_RS02180	COG0180	Tryptophanyl-tRNA synthetase
APY29_RS02185	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_RS02205	COG0697	spore germination
APY29_RS02230	COG1136	(ABC) transporter
APY29_RS02235	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_RS02240	COG4585	Histidine kinase
APY29_RS02245	COG2197	response regulator
APY29_RS02260	COG0753	catalase activity
APY29_RS02275	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_RS02280	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
APY29_RS02305	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
APY29_RS02335	COG0642	Histidine kinase
APY29_RS02345	COG1090	epimerase
APY29_RS02380	COG1690	Belongs to the RtcB family
APY29_RS02420	COG4943	cyclic-guanylate-specific phosphodiesterase activity
APY29_RS02435	COG0606	chelatase, subunit chli
APY29_RS02475	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_RS02480	COG1166	arginine decarboxylase activity
APY29_RS02485	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
APY29_RS02500	COG4221	oxidoreductase activity
APY29_RS02515	COG0018	arginyl-trna synthetase
APY29_RS02520	COG2003	Belongs to the UPF0758 family
APY29_RS02525	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_RS02530	COG0756	dUTP diphosphatase activity
APY29_RS02550	COG0463	Glycosyl transferase, family 2
APY29_RS02570	COG1475	DNA binding
APY29_RS02575	COG1192	Involved in chromosome partitioning
APY29_RS02585	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_RS02590	COG0708	Exodeoxyribonuclease III
APY29_RS02595	COG2211	Major facilitator Superfamily
APY29_RS02605	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_RS02610	COG0739	heme binding
APY29_RS02615	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_RS02660	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
APY29_RS02675	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_RS02705	COG0109	protoheme IX farnesyltransferase activity
APY29_RS02720	COG0358	DNA primase activity
APY29_RS02725	COG1295	ribonuclease BN
APY29_RS02735	COG1610	YqeY-like protein
APY29_RS02745	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_RS02750	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
APY29_RS02760	COG2133	pyrroloquinoline quinone binding
APY29_RS02765	COG4682	membrane
APY29_RS02780	COG0531	amino acid
APY29_RS02790	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_RS02800	COG3023	N-Acetylmuramoyl-L-alanine amidase
APY29_RS02805	COG2173	Catalyzes hydrolysis of the D-alanyl-D-alanine dipeptide
APY29_RS02855	COG5383	Protein conserved in bacteria
APY29_RS02865	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_RS02870	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_RS02875	COG1473	amidohydrolase
APY29_RS02880	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
APY29_RS02880	COG2904	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
APY29_RS02905	COG0583	DNA-binding transcription factor activity
APY29_RS02910	COG4579	[isocitrate dehydrogenase (NADP+)] phosphatase activity
APY29_RS02915	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_RS02920	COG3118	belongs to the thioredoxin family
APY29_RS02930	COG2884	Cell division ATP-binding protein ftsE
APY29_RS02935	COG2177	Part of the ABC transporter FtsEX involved in
APY29_RS02940	COG3437	response regulator, receiver
APY29_RS02945	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_RS02950	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
APY29_RS02955	COG2860	membrane
APY29_RS02960	COG1252	NADH dehydrogenase
APY29_RS02975	COG0625	glutathione transferase activity
APY29_RS02980	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_RS03000	COG0534	Mate efflux family protein
APY29_RS03005	COG0616	signal peptide processing
APY29_RS03015	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS03030	COG0009	L-threonylcarbamoyladenylate synthase
APY29_RS03035	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_RS03035	COG1754	DNA topoisomerase type I activity
APY29_RS03055	COG0758	DNA mediated transformation
APY29_RS03060	COG1652	LysM domain
APY29_RS03065	COG0242	peptide deformylase activity
APY29_RS03070	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_RS03075	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_RS03075	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
APY29_RS03130	COG1560	Kdo2-lipid A biosynthetic process
APY29_RS03135	COG1490	D-aminoacyl-tRNA deacylase activity
APY29_RS03140	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
APY29_RS03155	COG0582	viral genome integration into host DNA
APY29_RS03190	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_RS03220	COG0024	Methionine aminopeptidase
APY29_RS03265	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_RS03270	COG0583	DNA-binding transcription factor activity
APY29_RS03355	COG1063	alcohol dehydrogenase
APY29_RS03370	COG1132	(ABC) transporter
APY29_RS03390	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
APY29_RS03395	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS03410	COG1294	oxidase, subunit
APY29_RS03415	COG1271	oxidase subunit
APY29_RS03465	COG3546	catalase activity
APY29_RS03470	COG3685	Protein conserved in bacteria
APY29_RS03500	COG2972	Histidine kinase
APY29_RS03515	COG0531	amino acid
APY29_RS03535	COG3590	peptidase
APY29_RS03550	COG0667	Aldo Keto reductase
APY29_RS03560	COG0583	DNA-binding transcription factor activity
APY29_RS03570	COG3384	dioxygenase
APY29_RS03580	COG1573	uracil-dna glycosylase
APY29_RS03585	COG2335	COG2335, Secreted and surface protein containing fasciclin-like repeats
APY29_RS03595	COG0025	NhaP-type Na H and K H
APY29_RS03600	COG1131	(ABC) transporter
APY29_RS03605	COG0842	Transport permease protein
APY29_RS03665	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_RS03670	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
APY29_RS03690	COG2202	Pas domain
APY29_RS03690	COG2205	protein histidine kinase activity
APY29_RS03715	COG1187	pseudouridine synthase activity
APY29_RS03720	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
APY29_RS03745	COG5002	protein histidine kinase activity
APY29_RS03745	COG2198	Histidine kinase
APY29_RS03745	COG0784	Response regulator, receiver
APY29_RS03755	COG1666	GTP binding
APY29_RS03760	COG0697	spore germination
APY29_RS03765	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
APY29_RS03770	COG2011	ABC-type metal ion transport system permease component
APY29_RS03825	COG0508	dehydrogenase complex catalyzes the overall conversion of
APY29_RS03835	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
APY29_RS03855	COG0356	it plays a direct role in the translocation of protons across the membrane
APY29_RS03865	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
APY29_RS03870	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_RS03875	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
APY29_RS03880	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_RS03885	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_RS03890	COG0355	proton-transporting ATP synthase activity, rotational mechanism
APY29_RS03905	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_RS03910	COG4191	Histidine kinase
APY29_RS03925	COG0577	efflux transmembrane transporter activity
APY29_RS03930	COG0577	efflux transmembrane transporter activity
APY29_RS03935	COG1136	(ABC) transporter
APY29_RS03935	COG4591	ABC-type transport system involved in lipoprotein release permease component
APY29_RS03940	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_RS03945	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
APY29_RS04005	COG0339	signal peptide processing
APY29_RS04020	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APY29_RS04025	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_RS04040	COG2819	hydrolase of the alpha beta superfamily
APY29_RS04050	COG1956	GAF domain-containing protein
APY29_RS04055	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_RS04065	COG0720	synthase
APY29_RS04075	COG4206	TonB-dependent receptor
APY29_RS04085	COG0513	Belongs to the DEAD box helicase family
APY29_RS04100	COG0625	glutathione transferase activity
APY29_RS04130	COG0626	cystathionine gamma-synthase activity
APY29_RS04140	COG0438	transferase activity, transferring glycosyl groups
APY29_RS04160	COG0438	transferase activity, transferring glycosyl groups
APY29_RS04165	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
APY29_RS04215	COG0463	Glycosyl transferase, family 2
APY29_RS04230	COG2086	electron transfer activity
APY29_RS04260	COG0836	Belongs to the mannose-6-phosphate isomerase type 2 family
APY29_RS04260	COG0662	Cupin 2, conserved barrel domain protein
APY29_RS04265	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
APY29_RS04295	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
APY29_RS04295	COG3218	ABC-type transport auxiliary lipoprotein component
APY29_RS04300	COG1127	ABC transporter
APY29_RS04305	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
APY29_RS04320	COG0442	prolyl-tRNA aminoacylation
APY29_RS04330	COG1183	phosphatidylcholine synthase activity
APY29_RS04360	COG0525	valine-tRNA ligase activity
APY29_RS04385	COG0795	lipopolysaccharide-transporting ATPase activity
APY29_RS04400	COG4974	Belongs to the 'phage' integrase family
APY29_RS04415	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_RS04430	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_RS04430	COG0047	phosphoribosylformylglycinamidine synthase activity
APY29_RS04440	COG1404	Belongs to the peptidase S8 family
APY29_RS04445	COG5295	Hep Hag repeat protein
APY29_RS04450	COG1404	Belongs to the peptidase S8 family
APY29_RS04455	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
APY29_RS04465	COG1459	type II secretion system
APY29_RS04470	COG2165	general secretion pathway protein
APY29_RS04475	COG4970	Tfp pilus assembly protein FimT
APY29_RS04480	COG2165	general secretion pathway protein
APY29_RS04485	COG4795	General secretion pathway protein
APY29_RS04490	COG3156	type II secretion system protein K
APY29_RS04495	COG3166	PFAM Fimbrial assembly family protein
APY29_RS04510	COG1450	Type ii and iii secretion system protein
APY29_RS04525	COG2188	Transcriptional regulator
APY29_RS04580	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
APY29_RS04595	COG1215	transferase activity, transferring glycosyl groups
APY29_RS04600	COG1215	transferase activity, transferring glycosyl groups
APY29_RS04605	COG3405	Belongs to the glycosyl hydrolase 8 (cellulase D) family
APY29_RS04610	COG0457	Tetratricopeptide repeat
APY29_RS04640	COG0242	peptide deformylase activity
APY29_RS04645	COG1307	EDD domain protein, DegV family
APY29_RS04670	COG0402	S-adenosylhomocysteine deaminase activity
APY29_RS04675	COG3964	amidohydrolase
APY29_RS04690	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
APY29_RS04695	COG0726	polysaccharide deacetylase
APY29_RS04700	COG4773	Receptor
APY29_RS04775	COG1162	GTPase activity
APY29_RS04800	COG2211	Major facilitator Superfamily
APY29_RS04805	COG1609	Transcriptional regulator
APY29_RS04810	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS04815	COG2851	Citrate transporter
APY29_RS04835	COG0642	Histidine kinase
APY29_RS04845	COG2197	response regulator
APY29_RS04860	COG0667	Aldo Keto reductase
APY29_RS04865	COG0583	DNA-binding transcription factor activity
APY29_RS04895	COG1301	dicarboxylic acid transport
APY29_RS04900	COG0281	malic enzyme
APY29_RS04900	COG0280	phosphate acetyltransferase
APY29_RS04925	COG1560	Kdo2-lipid A biosynthetic process
APY29_RS04935	COG1519	Transferase
APY29_RS04940	COG1538	Outer membrane efflux protein
APY29_RS04945	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_RS04965	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
APY29_RS04970	COG0066	3-isopropylmalate dehydratase activity
APY29_RS04975	COG0473	3-isopropylmalate dehydrogenase activity
APY29_RS04980	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_RS05000	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_RS05005	COG0405	Gamma-glutamyltransferase
APY29_RS05010	COG0840	transmembrane signaling receptor activity
APY29_RS05025	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_RS05030	COG3710	Transcriptional regulator
APY29_RS05050	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
APY29_RS05060	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
APY29_RS05080	COG0563	adenylate kinase activity
APY29_RS05085	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
APY29_RS05095	COG3781	membrane
APY29_RS05100	COG0671	phosphoesterase, PA-phosphatase related
APY29_RS05110	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS05115	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
APY29_RS05120	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
APY29_RS05150	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
APY29_RS05165	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
APY29_RS05180	COG0352	thiamine-phosphate diphosphorylase activity
APY29_RS05185	COG1773	rubredoxin
APY29_RS05190	COG2912	Transglutaminase-like superfamily
APY29_RS05200	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
APY29_RS05210	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
APY29_RS05230	COG3079	Belongs to the UPF0149 family
APY29_RS05235	COG0006	proline dipeptidase activity
APY29_RS05245	COG0006	proline dipeptidase activity
APY29_RS05260	COG0635	Involved in the biosynthesis of porphyrin-containing compound
APY29_RS05265	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_RS05275	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_RS05280	COG1561	YicC-like family, N-terminal region
APY29_RS05285	COG0194	GDP metabolic process
APY29_RS05295	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_RS05305	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_RS05330	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
APY29_RS05385	COG2304	oxidoreductase activity
APY29_RS05400	COG1301	dicarboxylic acid transport
APY29_RS05405	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_RS05415	COG4773	Receptor
APY29_RS05425	COG0739	heme binding
APY29_RS05465	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
APY29_RS05470	COG4149	molybdate abc transporter
APY29_RS05475	COG0725	ABC transporter, periplasmic molybdate-binding protein
APY29_RS05480	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_RS05480	COG3453	Protein conserved in bacteria
APY29_RS05490	COG3047	cAMP biosynthetic process
APY29_RS05495	COG3047	cAMP biosynthetic process
APY29_RS05505	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
APY29_RS05530	COG0126	phosphoglycerate kinase activity
APY29_RS05540	COG0469	pyruvate kinase activity
APY29_RS05555	COG3588	fructose-bisphosphate aldolase
APY29_RS05560	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
APY29_RS05575	COG1648	precorrin-2 dehydrogenase activity
APY29_RS05575	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_RS05595	COG0784	Response regulator, receiver
APY29_RS05595	COG2198	Histidine kinase
APY29_RS05595	COG2205	protein histidine kinase activity
APY29_RS05615	COG0175	sulfate reduction
APY29_RS05620	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
APY29_RS05625	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_RS05630	COG0175	sulfate reduction
APY29_RS05635	COG2895	sulfate adenylyltransferase (ATP) activity
APY29_RS05635	COG0529	Catalyzes the synthesis of activated sulfate
APY29_RS05645	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_RS05670	COG0308	aminopeptidase N
APY29_RS05680	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
APY29_RS05695	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_RS05700	COG3250	beta-galactosidase activity
APY29_RS05710	COG1609	Transcriptional regulator
APY29_RS05720	COG1970	mechanosensitive ion channel activity
APY29_RS05745	COG0471	metal ion transport
APY29_RS05745	COG3273	potassium ion transport
APY29_RS05750	COG0220	tRNA (guanine-N7-)-methyltransferase activity
APY29_RS05760	COG2022	thiamine diphosphate biosynthetic process
APY29_RS05785	COG1752	Esterase of the alpha-beta hydrolase superfamily
APY29_RS05850	COG0189	ligase activity
APY29_RS05860	COG0745	RESPONSE REGULATOR receiver
APY29_RS05865	COG5002	protein histidine kinase activity
APY29_RS05895	COG0237	dephospho-CoA kinase activity
APY29_RS05900	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
APY29_RS05915	COG4969	Belongs to the N-Me-Phe pilin family
APY29_RS05940	COG0045	succinate-CoA ligase (ADP-forming) activity
APY29_RS05945	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_RS05960	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
APY29_RS05960	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
APY29_RS05970	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_RS05975	COG0564	pseudouridine synthase activity
APY29_RS05990	COG3011	Protein conserved in bacteria
APY29_RS05995	COG0840	transmembrane signaling receptor activity
APY29_RS06015	COG3387	PFAM Glycoside hydrolase 15-related
APY29_RS06020	COG1877	trehalose-phosphatase activity
APY29_RS06060	COG2827	Endonuclease containing a URI domain
APY29_RS06065	COG4771	TonB-dependent receptor
APY29_RS06075	COG0667	Aldo Keto reductase
APY29_RS06080	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
APY29_RS06085	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
APY29_RS06090	COG1116	anion transmembrane transporter activity
APY29_RS06095	COG0542	response to heat
APY29_RS06100	COG4206	TonB-dependent receptor
APY29_RS06120	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
APY29_RS06130	COG1492	cobalamin metabolic process
APY29_RS06140	COG2038	nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity
APY29_RS06160	COG0019	diaminopimelate decarboxylase activity
APY29_RS06175	COG4264	IucA IucC family
APY29_RS06185	COG4772	TonB-dependent receptor
APY29_RS06210	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
APY29_RS06210	COG4651	solute:proton antiporter activity
APY29_RS06290	COG0477	Major facilitator Superfamily
APY29_RS06305	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_RS06320	COG0217	transcriptional regulatory protein
APY29_RS06325	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_RS06330	COG0632	four-way junction helicase activity
APY29_RS06335	COG3158	transport of potassium into the cell
APY29_RS06345	COG2255	four-way junction helicase activity
APY29_RS06350	COG0824	Thioesterase
APY29_RS06360	COG0848	biopolymer transport protein
APY29_RS06370	COG0823	Involved in the tonB-independent uptake of proteins
APY29_RS06375	COG2885	chlorophyll binding
APY29_RS06385	COG0602	queuosine metabolic process
APY29_RS06395	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
APY29_RS06400	COG3920	Histidine kinase
APY29_RS06420	COG0840	transmembrane signaling receptor activity
APY29_RS06455	COG0514	ATP-dependent DNA helicase (RecQ)
APY29_RS06465	COG0783	Belongs to the Dps family
APY29_RS06470	COG1643	Atp-dependent helicase
APY29_RS06485	COG0837	glucose binding
APY29_RS06500	COG0535	radical SAM domain protein
APY29_RS06505	COG0535	radical SAM domain protein
APY29_RS06510	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_RS06515	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
APY29_RS06525	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_RS06540	COG1215	transferase activity, transferring glycosyl groups
APY29_RS06545	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
APY29_RS06555	COG1199	ATP-dependent helicase activity
APY29_RS06565	COG1397	ADP-ribosylglycohydrolase
APY29_RS06575	COG0189	ligase activity
APY29_RS06590	COG0835	chemotaxis
APY29_RS06595	COG0840	transmembrane signaling receptor activity
APY29_RS06635	COG1446	asparaginase
APY29_RS06640	COG3142	Participates in the control of copper homeostasis
APY29_RS06680	COG3537	Alpha-1,2-mannosidase
APY29_RS06725	COG1472	Belongs to the glycosyl hydrolase 3 family
APY29_RS06740	COG3858	chitin binding
APY29_RS06740	COG1388	LysM domain
APY29_RS06755	COG0837	glucose binding
APY29_RS06760	COG1385	rRNA (uridine-N3-)-methyltransferase activity
APY29_RS06770	COG0494	nUDIX hydrolase
APY29_RS06780	COG3956	TIGRFAM MazG family protein
APY29_RS06785	COG1742	UPF0060 membrane protein
APY29_RS06800	COG0404	The glycine cleavage system catalyzes the degradation of glycine
APY29_RS06805	COG0509	glycine decarboxylation via glycine cleavage system
APY29_RS06835	COG1960	acyl-CoA dehydrogenase activity
APY29_RS06845	COG1309	transcriptional regulator
APY29_RS06875	COG4771	TonB-dependent receptor
APY29_RS06885	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_RS06890	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
APY29_RS06895	COG0463	Glycosyl transferase, family 2
APY29_RS06900	COG0517	IMP dehydrogenase activity
APY29_RS06900	COG0516	GMP reductase activity
APY29_RS06905	COG2982	Protein involved in outer membrane biogenesis
APY29_RS06910	COG1272	protein, Hemolysin III
APY29_RS06915	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_RS06920	COG0739	heme binding
APY29_RS06925	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
APY29_RS06930	COG0626	cystathionine gamma-synthase activity
APY29_RS06935	COG0460	homoserine dehydrogenase
APY29_RS06935	COG0527	aspartate kinase activity
APY29_RS06950	COG1760	l-serine dehydratase
APY29_RS06970	COG2353	YceI-like domain
APY29_RS06975	COG2205	protein histidine kinase activity
APY29_RS06975	COG0784	Response regulator, receiver
APY29_RS06975	COG2198	Histidine kinase
APY29_RS07000	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
APY29_RS07010	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
APY29_RS07015	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
APY29_RS07020	COG0259	pyridoxamine-phosphate oxidase activity
APY29_RS07030	COG1842	Phage shock protein A
APY29_RS07055	COG0754	glutathionylspermidine amidase activity
APY29_RS07175	COG0531	amino acid
APY29_RS07180	COG2197	response regulator
APY29_RS07220	COG1113	amino acid transport
APY29_RS07230	COG1271	oxidase subunit
APY29_RS07235	COG1294	oxidase, subunit
APY29_RS07250	COG2239	Acts as a magnesium transporter
APY29_RS07265	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
APY29_RS07275	COG1660	Displays ATPase and GTPase activities
APY29_RS07280	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_RS07285	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
APY29_RS07300	COG1137	ATPase activity
APY29_RS07305	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_RS07315	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_RS07325	COG0271	Belongs to the BolA IbaG family
APY29_RS07330	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
APY29_RS07350	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_RS07365	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
APY29_RS07375	COG0628	permease
APY29_RS07385	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
APY29_RS07390	COG3178	'Phosphotransferase
APY29_RS07405	COG1555	photosystem II stabilization
APY29_RS07420	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_RS07425	COG1477	protein flavinylation
APY29_RS07450	COG3128	pkhd-type hydroxylase
APY29_RS07455	COG4774	siderophore transport
APY29_RS07460	COG2146	nitrite reductase [NAD(P)H] activity
APY29_RS07470	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_RS07475	COG0719	Fe-S assembly protein
APY29_RS07480	COG0396	ATPase activity
APY29_RS07485	COG0719	Fe-S assembly protein
APY29_RS07490	COG1959	2 iron, 2 sulfur cluster binding
APY29_RS07500	COG0693	protein deglycase activity
APY29_RS07520	COG0739	heme binding
APY29_RS07535	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
APY29_RS07560	COG0519	Catalyzes the synthesis of GMP from XMP
APY29_RS07570	COG1678	Uncharacterized ACR, COG1678
APY29_RS07575	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
APY29_RS07580	COG0540	Belongs to the ATCase OTCase family
APY29_RS07585	COG1764	response to oxidative stress
APY29_RS07595	COG0384	phenazine biosynthesis protein PhzF
APY29_RS07600	COG0384	phenazine biosynthesis protein PhzF
APY29_RS07605	COG0527	aspartate kinase activity
APY29_RS07620	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
APY29_RS07635	COG0142	geranyltranstransferase activity
APY29_RS07640	COG0629	single-stranded DNA binding
APY29_RS07650	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS07650	COG0604	alcohol dehydrogenase
APY29_RS07650	COG3321	synthase
APY29_RS07655	COG2080	2 iron, 2 sulfur cluster binding
APY29_RS07660	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
APY29_RS07665	COG1529	Aldehyde oxidase and xanthine dehydrogenase
APY29_RS07670	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
APY29_RS07715	COG2879	small protein
APY29_RS07720	COG1966	Carbon starvation protein
APY29_RS07725	COG1741	Belongs to the pirin family
APY29_RS07740	COG1741	Belongs to the pirin family
APY29_RS07750	COG1515	deoxyribonuclease V activity
APY29_RS07755	COG0588	phosphoglycerate mutase activity
APY29_RS07765	COG3590	peptidase
APY29_RS07770	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_RS07775	COG2201	protein-glutamate methylesterase activity
APY29_RS07780	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
APY29_RS07785	COG2200	EAL domain
APY29_RS07785	COG2202	Pas domain
APY29_RS07785	COG2199	diguanylate cyclase activity
APY29_RS07790	COG0835	chemotaxis
APY29_RS07795	COG0840	transmembrane signaling receptor activity
APY29_RS07800	COG0643	Histidine kinase
APY29_RS07800	COG2198	Histidine kinase
APY29_RS07835	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_RS07845	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
APY29_RS07850	COG0745	RESPONSE REGULATOR receiver
APY29_RS07855	COG2205	protein histidine kinase activity
APY29_RS07870	COG4452	Inner membrane protein CreD
APY29_RS07895	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_RS07900	COG0735	belongs to the Fur family
APY29_RS07915	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_RS07925	COG1309	transcriptional regulator
APY29_RS07930	COG0667	Aldo Keto reductase
APY29_RS07945	COG2207	Transcriptional regulator
APY29_RS07955	COG0583	DNA-binding transcription factor activity
APY29_RS07960	COG2814	Major facilitator Superfamily
APY29_RS08085	COG5002	protein histidine kinase activity
APY29_RS08085	COG5001	Diguanylate cyclase
APY29_RS08090	COG1187	pseudouridine synthase activity
APY29_RS08115	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_RS08125	COG0475	glutathione-regulated potassium exporter activity
APY29_RS08135	COG0745	RESPONSE REGULATOR receiver
APY29_RS08140	COG1538	Outer membrane efflux protein
APY29_RS08170	COG1132	(ABC) transporter
APY29_RS08220	COG2155	Conserved Protein
APY29_RS08260	COG3118	belongs to the thioredoxin family
APY29_RS08270	COG0495	leucyl-tRNA aminoacylation
APY29_RS08285	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
APY29_RS08300	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
APY29_RS08315	COG2968	Membrane
APY29_RS08320	COG0424	maF-like protein
APY29_RS08330	COG3164	Protein of unknown function
APY29_RS08340	COG0312	modulator of DNA gyrase
APY29_RS08345	COG3028	Belongs to the UPF0307 family
APY29_RS08350	COG0312	modulator of DNA gyrase
APY29_RS08360	COG4104	PAAR repeat-containing protein
APY29_RS08370	COG0142	geranyltranstransferase activity
APY29_RS08375	COG1722	exodeoxyribonuclease VII activity
APY29_RS08380	COG0037	tRNA processing
APY29_RS08390	COG1785	Belongs to the alkaline phosphatase family
APY29_RS08395	COG1301	dicarboxylic acid transport
APY29_RS08400	COG4106	trans-aconitate 2-methyltransferase activity
APY29_RS08410	COG0791	NLP P60 protein
APY29_RS08415	COG0791	NLP P60 protein
APY29_RS08420	COG1047	Peptidyl-prolyl cis-trans
APY29_RS08425	COG2311	Membrane
APY29_RS08430	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_RS08435	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
APY29_RS08455	COG3590	peptidase
APY29_RS08465	COG3590	peptidase
APY29_RS08485	COG0489	protein tyrosine kinase activity
APY29_RS08495	COG0717	Belongs to the dCTP deaminase family
APY29_RS08535	COG1404	Belongs to the peptidase S8 family
APY29_RS08540	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_RS08550	COG2336	PFAM SpoVT AbrB
APY29_RS08560	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_RS08565	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_RS08585	COG0494	nUDIX hydrolase
APY29_RS08610	COG0688	phosphatidylethanolamine metabolic process
APY29_RS08620	COG2890	protein-(glutamine-N5) methyltransferase activity
APY29_RS08625	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_RS08630	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
APY29_RS08635	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
APY29_RS08655	COG0101	tRNA pseudouridine synthase activity
APY29_RS08660	COG0135	phosphoribosylanthranilate isomerase activity
APY29_RS08670	COG0133	tryptophan synthase activity
APY29_RS08680	COG0159	tryptophan synthase activity
APY29_RS08685	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_RS08690	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
APY29_RS08720	COG0300	oxidoreductase activity
APY29_RS08725	COG0149	triose-phosphate isomerase activity
APY29_RS08740	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_RS08745	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_RS08750	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_RS08755	COG0649	NAD binding
APY29_RS08760	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
APY29_RS08765	COG1894	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain
APY29_RS08775	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_RS08780	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_RS08805	COG1007	ATP synthesis coupled electron transport
APY29_RS08815	COG0779	Required for maturation of 30S ribosomal subunits
APY29_RS08820	COG0195	Participates in both transcription termination and antitermination
APY29_RS08825	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_RS08830	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_RS08835	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
APY29_RS08840	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
APY29_RS08845	COG1185	polyribonucleotide nucleotidyltransferase activity
APY29_RS08880	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
APY29_RS08890	COG2095	MarC family integral membrane protein
APY29_RS08905	COG1611	Belongs to the LOG family
APY29_RS08950	COG0556	nucleotide-excision repair
APY29_RS08965	COG3505	Type IV secretory pathway VirD4
APY29_RS08985	COG2948	multi-organism process
APY29_RS09005	COG3702	type iv secretory pathway
APY29_RS09075	COG1082	Xylose isomerase domain protein TIM barrel
APY29_RS09100	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_RS09105	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_RS09120	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
APY29_RS09125	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_RS09125	COG0072	phenylalanine-tRNA ligase activity
APY29_RS09175	COG0438	transferase activity, transferring glycosyl groups
APY29_RS09180	COG0438	transferase activity, transferring glycosyl groups
APY29_RS09190	COG0438	transferase activity, transferring glycosyl groups
APY29_RS09215	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_RS09220	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_RS09225	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
APY29_RS09245	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_RS09255	COG1960	acyl-CoA dehydrogenase activity
APY29_RS09270	COG3040	lipid binding
APY29_RS09285	COG0322	excinuclease ABC activity
APY29_RS09305	COG0784	Response regulator, receiver
APY29_RS09305	COG4191	Histidine kinase
APY29_RS09310	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_RS09315	COG1194	a g-specific adenine glycosylase
APY29_RS09325	COG0552	protein localization to endoplasmic reticulum
APY29_RS09335	COG3938	Belongs to the proline racemase family
APY29_RS09340	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_RS09355	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
APY29_RS09365	COG0006	proline dipeptidase activity
APY29_RS09380	COG0531	amino acid
APY29_RS09445	COG4206	TonB-dependent receptor
APY29_RS09480	COG0326	Molecular chaperone. Has ATPase activity
APY29_RS09485	COG0742	ribosomal rna small subunit methyltransferase
APY29_RS09490	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
APY29_RS09505	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
APY29_RS09510	COG0405	Gamma-glutamyltransferase
APY29_RS09515	COG3291	Pkd domain containing protein
APY29_RS09520	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
APY29_RS09570	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_RS09575	COG0343	queuine tRNA-ribosyltransferase activity
APY29_RS09580	COG1862	Preprotein translocase
APY29_RS09590	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_RS09635	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
APY29_RS09635	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
APY29_RS09640	COG1105	Belongs to the carbohydrate kinase PfkB family
APY29_RS09645	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_RS09645	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
APY29_RS09650	COG1609	Transcriptional regulator
APY29_RS09655	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_RS09660	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_RS09670	COG2902	Dehydrogenase
APY29_RS09685	COG0477	Major facilitator Superfamily
APY29_RS09695	COG2205	protein histidine kinase activity
APY29_RS09695	COG0784	Response regulator, receiver
APY29_RS09695	COG5002	protein histidine kinase activity
APY29_RS09700	COG2733	membrane
APY29_RS09710	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
APY29_RS09725	COG2223	nitrite transmembrane transporter activity
APY29_RS09730	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_RS09735	COG0243	molybdopterin cofactor binding
APY29_RS09745	COG0477	Major facilitator Superfamily
APY29_RS09750	COG2703	oxygen carrier activity
APY29_RS09760	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_RS09765	COG0174	glutamine synthetase
APY29_RS09770	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
APY29_RS09790	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
APY29_RS09810	COG3842	ATPase activity
APY29_RS09815	COG1176	ABC-type spermidine putrescine transport system, permease component I
APY29_RS09820	COG1177	transmembrane transport
APY29_RS09825	COG1012	belongs to the aldehyde dehydrogenase family
APY29_RS09840	COG4535	Mg2 and Co2 transporter CorC
APY29_RS09850	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_RS09860	COG1702	phosphate starvation-inducible protein PhoH
APY29_RS09865	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_RS09880	COG0741	lytic transglycosylase activity
APY29_RS09890	COG0723	plastoquinol--plastocyanin reductase activity
APY29_RS09895	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_RS09900	COG2857	Cytochrome c1
APY29_RS09905	COG0625	glutathione transferase activity
APY29_RS09910	COG2969	positive regulation of protein catabolic process
APY29_RS09930	COG1201	RNA secondary structure unwinding
APY29_RS09935	COG2094	Belongs to the DNA glycosylase MPG family
APY29_RS09940	COG0840	transmembrane signaling receptor activity
APY29_RS09945	COG0835	chemotaxis
APY29_RS10025	COG1262	PFAM Formylglycine-generating sulfatase enzyme
APY29_RS10035	COG1570	exodeoxyribonuclease VII activity
APY29_RS10040	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_RS10045	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_RS10045	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
APY29_RS10050	COG0802	atpase or kinase
APY29_RS10055	COG0860	N-Acetylmuramoyl-L-alanine amidase
APY29_RS10060	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_RS10085	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS10090	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_RS10095	COG0501	Belongs to the peptidase M48B family
APY29_RS10105	COG2081	HI0933 family
APY29_RS10110	COG4681	YaeQ
APY29_RS10120	COG0625	glutathione transferase activity
APY29_RS10130	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
APY29_RS10135	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
APY29_RS10140	COG0513	Belongs to the DEAD box helicase family
APY29_RS10145	COG0488	(ABC) transporter
APY29_RS10165	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
APY29_RS10170	COG0483	inositol monophosphate 1-phosphatase activity
APY29_RS10185	COG3300	MHYT domain
APY29_RS10185	COG5001	Diguanylate cyclase
APY29_RS10190	COG1509	lysine 2,3-aminomutase activity
APY29_RS10195	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_RS10205	COG0402	S-adenosylhomocysteine deaminase activity
APY29_RS10210	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
APY29_RS10275	COG4302	ethanolamine ammonia-lyase activity
APY29_RS10305	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
APY29_RS10310	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
APY29_RS10325	COG2166	iron-sulfur cluster assembly
APY29_RS10330	COG0215	cysteine-tRNA ligase activity
APY29_RS10340	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_RS10345	COG0137	argininosuccinate synthase activity
APY29_RS10355	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_RS10360	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
APY29_RS10370	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
APY29_RS10375	COG0165	Argininosuccinate lyase
APY29_RS10390	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_RS10420	COG1294	oxidase, subunit
APY29_RS10430	COG4988	ABC transporter
APY29_RS10435	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
APY29_RS10440	COG1278	Cold shock
APY29_RS10445	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
APY29_RS10465	COG1138	Cytochrome C-type biogenesis protein
APY29_RS10470	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_RS10490	COG4133	protoheme IX ABC transporter activity
APY29_RS10495	COG0436	Aminotransferase
APY29_RS10515	COG1187	pseudouridine synthase activity
APY29_RS10520	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_RS10525	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_RS10530	COG2350	Protein conserved in bacteria
APY29_RS10560	COG1175	transmembrane transport
APY29_RS10565	COG0395	ABC-type sugar transport system, permease component
APY29_RS10590	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
APY29_RS10595	COG2957	Belongs to the agmatine deiminase family
APY29_RS10615	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
APY29_RS10620	COG0539	negative regulation of cytoplasmic translation
APY29_RS10625	COG0776	regulation of translation
APY29_RS10635	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_RS10640	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
APY29_RS10650	COG1210	Utp--glucose-1-phosphate uridylyltransferase
APY29_RS10655	COG0475	glutathione-regulated potassium exporter activity
APY29_RS10655	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
APY29_RS10665	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
APY29_RS10675	COG0519	Catalyzes the synthesis of GMP from XMP
APY29_RS10675	COG0518	GMP synthase (glutamine-hydrolyzing) activity
APY29_RS10680	COG0582	viral genome integration into host DNA
APY29_RS10725	COG0667	Aldo Keto reductase
APY29_RS10770	COG3451	type IV secretory pathway VirB4
APY29_RS10785	COG3846	protein secretion by the type IV secretion system
APY29_RS10810	COG3002	Belongs to the UPF0753 family
APY29_RS10815	COG0583	DNA-binding transcription factor activity
APY29_RS10830	COG2197	response regulator
APY29_RS10845	COG1335	isochorismatase
APY29_RS10855	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
APY29_RS10870	COG1914	H( )-stimulated, divalent metal cation uptake system
APY29_RS10890	COG2814	Major facilitator Superfamily
APY29_RS10900	COG0668	transmembrane transport
APY29_RS10910	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
APY29_RS10925	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS10930	COG1183	phosphatidylcholine synthase activity
APY29_RS10940	COG3243	poly(R)-hydroxyalkanoic acid synthase
APY29_RS10955	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APY29_RS10955	COG0723	plastoquinol--plastocyanin reductase activity
APY29_RS10965	COG2183	response to ionizing radiation
APY29_RS10975	COG2205	protein histidine kinase activity
APY29_RS10975	COG0784	Response regulator, receiver
APY29_RS11060	COG0800	Aldolase
APY29_RS11065	COG0129	dihydroxy-acid dehydratase activity
APY29_RS11070	COG0363	glucosamine-6-phosphate deaminase activity
APY29_RS11075	COG0837	glucose binding
APY29_RS11080	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
APY29_RS11105	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
APY29_RS11120	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
APY29_RS11125	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_RS11135	COG4591	ABC-type transport system involved in lipoprotein release permease component
APY29_RS11140	COG1136	(ABC) transporter
APY29_RS11155	COG0811	peptide transport
APY29_RS11165	COG1132	(ABC) transporter
APY29_RS11170	COG1663	tetraacyldisaccharide 4'-kinase activity
APY29_RS11175	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
APY29_RS11180	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
APY29_RS11190	COG0322	excinuclease ABC activity
APY29_RS11195	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
APY29_RS11215	COG0582	viral genome integration into host DNA
APY29_RS11250	COG1074	ATP-dependent DNA helicase activity
APY29_RS11255	COG3593	DNA synthesis involved in DNA repair
APY29_RS11390	COG2814	Major facilitator Superfamily
APY29_RS11400	COG2816	NAD+ diphosphatase activity
APY29_RS11410	COG1960	acyl-CoA dehydrogenase activity
APY29_RS11425	COG0477	Major facilitator Superfamily
APY29_RS11430	COG0583	DNA-binding transcription factor activity
APY29_RS11635	COG0270	DNA (cytosine-5-)-methyltransferase activity
APY29_RS11640	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_RS11645	COG0629	single-stranded DNA binding
APY29_RS11710	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_RS11805	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
APY29_RS11825	COG1054	Belongs to the UPF0176 family
APY29_RS11835	COG1530	ribonuclease E activity
APY29_RS11845	COG3064	Membrane
APY29_RS11850	COG0428	transporter
APY29_RS11860	COG2154	pterin-4-alpha-carbinolamine dehydratase
APY29_RS11865	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_RS11865	COG0316	Belongs to the HesB IscA family
APY29_RS11990	COG1238	metal cluster binding
APY29_RS12025	COG3279	Response regulator of the LytR AlgR family
APY29_RS12050	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_RS12075	COG4566	intracellular signal transduction
APY29_RS12085	COG5001	Diguanylate cyclase
APY29_RS12105	COG3685	Protein conserved in bacteria
APY29_RS12130	COG1648	precorrin-2 dehydrogenase activity
APY29_RS12130	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_RS12140	COG0746	molybdenum cofactor guanylyltransferase activity
APY29_RS12145	COG0303	'Molybdopterin
APY29_RS12155	COG0708	Exodeoxyribonuclease III
APY29_RS12255	COG4644	lycopene metabolic process
APY29_RS12290	COG4456	Virulence-associated protein
APY29_RS12305	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_RS12475	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
APY29_RS12480	COG0303	'Molybdopterin
APY29_RS12485	COG1160	GTP binding
APY29_RS12490	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_RS12500	COG1426	Protein conserved in bacteria
APY29_RS12510	COG0820	rRNA (adenine-C2-)-methyltransferase activity
APY29_RS12525	COG1250	3-hydroxyacyl-CoA dehydrogenase
APY29_RS12525	COG1024	Enoyl-CoA hydratase
APY29_RS12530	COG0183	Belongs to the thiolase family
APY29_RS12540	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
APY29_RS12545	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
APY29_RS12555	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_RS12565	COG1674	ftsk spoiiie
APY29_RS12570	COG0492	ferredoxin-NADP+ reductase activity
APY29_RS12580	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_RS12590	COG0542	response to heat
APY29_RS12605	COG0482	sulfurtransferase activity
APY29_RS12610	COG2915	High frequency lysogenization protein hflD homolog
APY29_RS12640	COG5002	protein histidine kinase activity
APY29_RS12665	COG0784	Response regulator, receiver
APY29_RS12665	COG0835	chemotaxis
APY29_RS12675	COG1558	bacterial-type flagellum-dependent cell motility
APY29_RS12680	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
APY29_RS12690	COG4787	bacterial-type flagellum-dependent cell motility
APY29_RS12710	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
APY29_RS12715	COG1706	bacterial-type flagellum-dependent cell motility
APY29_RS12720	COG3951	Flagellar rod assembly protein muramidase FlgJ
APY29_RS12720	COG1705	Flagellar rod assembly protein muramidase FlgJ
APY29_RS12730	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
APY29_RS12735	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
APY29_RS12740	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_RS12770	COG2201	protein-glutamate methylesterase activity
APY29_RS12790	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_RS12795	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS12800	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS12845	COG1677	Flagellar hook-basal body complex protein FliE
APY29_RS12895	COG3190	flagellar
APY29_RS12910	COG1684	flagellar biosynthetic protein fliR
APY29_RS12940	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_RS12970	COG2198	Histidine kinase
APY29_RS12970	COG0784	Response regulator, receiver
APY29_RS12970	COG0643	Histidine kinase
APY29_RS13040	COG1192	Involved in chromosome partitioning
APY29_RS13060	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
APY29_RS13065	COG1360	Flagellar Motor Protein
APY29_RS13075	COG0835	chemotaxis
APY29_RS13085	COG0745	RESPONSE REGULATOR receiver
APY29_RS13095	COG0840	transmembrane signaling receptor activity
APY29_RS13110	COG0840	transmembrane signaling receptor activity
APY29_RS13125	COG0840	transmembrane signaling receptor activity
APY29_RS13130	COG0840	transmembrane signaling receptor activity
APY29_RS13135	COG0840	transmembrane signaling receptor activity
APY29_RS13150	COG0840	transmembrane signaling receptor activity
APY29_RS13155	COG0840	transmembrane signaling receptor activity
APY29_RS13160	COG0840	transmembrane signaling receptor activity
APY29_RS13165	COG0840	transmembrane signaling receptor activity
APY29_RS13185	COG0835	chemotaxis
APY29_RS13195	COG0840	transmembrane signaling receptor activity
APY29_RS13205	COG1871	Probably deamidates glutamine residues to glutamate on methyl-accepting chemotaxis receptors (MCPs), playing an important role in chemotaxis
APY29_RS13210	COG2201	protein-glutamate methylesterase activity
APY29_RS13250	COG0318	PFAM AMP-dependent synthetase and ligase
APY29_RS13255	COG1024	Enoyl-CoA hydratase
APY29_RS13260	COG2198	Histidine kinase
APY29_RS13260	COG2205	protein histidine kinase activity
APY29_RS13260	COG0784	Response regulator, receiver
APY29_RS13270	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
APY29_RS13275	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
APY29_RS13280	COG3279	Response regulator of the LytR AlgR family
APY29_RS13315	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
APY29_RS13325	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_RS13330	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
APY29_RS13340	COG0505	Belongs to the CarA family
APY29_RS13345	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
APY29_RS13350	COG2258	MOSC domain
APY29_RS13355	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
APY29_RS13400	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_RS13420	COG0277	FAD linked oxidase domain protein
APY29_RS13425	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
APY29_RS13435	COG0531	amino acid
APY29_RS13440	COG0531	amino acid
APY29_RS13445	COG0235	Class ii aldolase
APY29_RS13450	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_RS13455	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_RS13470	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
APY29_RS13470	COG0140	phosphoribosyl-ATP diphosphatase activity
APY29_RS13475	COG0107	imidazoleglycerol-phosphate synthase activity
APY29_RS13480	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
APY29_RS13485	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_RS13490	COG0131	Imidazoleglycerol-phosphate dehydratase
APY29_RS13490	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
APY29_RS13495	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
APY29_RS13500	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
APY29_RS13505	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_RS13515	COG0124	histidyl-tRNA synthetase
APY29_RS13520	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
APY29_RS13530	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
APY29_RS13580	COG1649	PFAM Uncharacterised BCR, COG1649
APY29_RS13580	COG0726	polysaccharide deacetylase
APY29_RS13585	COG1215	transferase activity, transferring glycosyl groups
APY29_RS13600	COG1012	belongs to the aldehyde dehydrogenase family
APY29_RS13620	COG0167	dihydroorotate dehydrogenase activity
APY29_RS13625	COG0812	UDP-N-acetylmuramate dehydrogenase activity
APY29_RS13630	COG0697	spore germination
APY29_RS13640	COG1794	racemase activity, acting on amino acids and derivatives
APY29_RS13655	COG0671	phosphoesterase, PA-phosphatase related
APY29_RS13660	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
APY29_RS13675	COG4567	Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain
APY29_RS13680	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_RS13690	COG3706	GGDEF domain
APY29_RS13690	COG4251	negative regulation of phosphorylation
APY29_RS13690	COG5001	Diguanylate cyclase
APY29_RS13690	COG2203	Gaf domain
APY29_RS13705	COG1472	Belongs to the glycosyl hydrolase 3 family
APY29_RS13730	COG0166	Belongs to the GPI family
APY29_RS13735	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
APY29_RS13740	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
APY29_RS13745	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
APY29_RS13765	COG1469	GTP cyclohydrolase I activity
APY29_RS13770	COG0860	N-Acetylmuramoyl-L-alanine amidase
APY29_RS13790	COG0477	Major facilitator Superfamily
APY29_RS13795	COG2115	Belongs to the xylose isomerase family
APY29_RS13800	COG1070	Carbohydrate kinase
APY29_RS13810	COG1501	Belongs to the glycosyl hydrolase 31 family
APY29_RS13850	COG0800	Aldolase
APY29_RS13855	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_RS13865	COG3734	2-keto-3-deoxy-galactonokinase
APY29_RS13870	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
APY29_RS13880	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
APY29_RS13895	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
APY29_RS13900	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
APY29_RS13915	COG0351	phosphomethylpyrimidine kinase
APY29_RS13940	COG0583	DNA-binding transcription factor activity
APY29_RS13945	COG1741	Belongs to the pirin family
APY29_RS13965	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
APY29_RS13970	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_RS13975	COG2137	regulation of response to DNA damage stimulus
APY29_RS13985	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_RS13990	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_RS14000	COG1546	Belongs to the CinA family
APY29_RS14005	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
APY29_RS14015	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_RS14020	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_RS14030	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_RS14035	COG1534	Rna-binding protein
APY29_RS14050	COG1238	metal cluster binding
APY29_RS14055	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_RS14060	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
APY29_RS14070	COG0585	pseudouridine synthase activity
APY29_RS14075	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
APY29_RS14085	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_RS14090	COG0148	phosphopyruvate hydratase activity
APY29_RS14100	COG2877	3-deoxy-8-phosphooctulonate synthase activity
APY29_RS14105	COG0504	CTP synthase activity
APY29_RS14130	COG0306	phosphate transporter
APY29_RS14145	COG1253	flavin adenine dinucleotide binding
APY29_RS14160	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
APY29_RS14165	COG0477	Major facilitator Superfamily
APY29_RS14170	COG1132	(ABC) transporter
APY29_RS14175	COG1136	(ABC) transporter
APY29_RS14200	COG2264	protein methyltransferase activity
APY29_RS14235	COG2244	polysaccharide biosynthetic process
APY29_RS14315	COG2951	lytic endotransglycosylase activity
APY29_RS14355	COG1595	DNA-templated transcription, initiation
APY29_RS14370	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
APY29_RS14380	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_RS14390	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
APY29_RS14405	COG4191	Histidine kinase
APY29_RS14405	COG0784	Response regulator, receiver
APY29_RS14445	COG0840	transmembrane signaling receptor activity
APY29_RS14460	COG0583	DNA-binding transcription factor activity
APY29_RS14465	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_RS14470	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_RS14485	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
APY29_RS14495	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
APY29_RS14500	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_RS14505	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_RS14545	COG1228	amidohydrolase
APY29_RS14550	COG2986	histidine ammonia-lyase
APY29_RS14560	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
APY29_RS14570	COG4993	Dehydrogenase
APY29_RS14580	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
APY29_RS14595	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_RS14600	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_RS14605	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
APY29_RS14620	COG3115	cell septum assembly
APY29_RS14630	COG0359	binds to the 23S rRNA
APY29_RS14635	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_RS14640	COG0360	Binds together with S18 to 16S ribosomal RNA
APY29_RS14645	COG0316	Belongs to the HesB IscA family
APY29_RS14655	COG0017	Asparaginyl-tRNA synthetase
APY29_RS14675	COG2808	Putative FMN-binding domain
APY29_RS14745	COG0288	reversible hydration of carbon dioxide
APY29_RS14750	COG0662	Cupin 2, conserved barrel domain protein
APY29_RS14760	COG3844	kynureninase activity
APY29_RS14765	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_RS14770	COG2925	Exonuclease
APY29_RS14795	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_RS14800	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
APY29_RS14800	COG0116	Belongs to the methyltransferase superfamily
APY29_RS14810	COG0488	(ABC) transporter
APY29_RS14845	COG0494	nUDIX hydrolase
APY29_RS14855	COG1024	Enoyl-CoA hydratase
APY29_RS14865	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_RS14870	COG0659	secondary active sulfate transmembrane transporter activity
APY29_RS14895	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
APY29_RS14900	COG0573	inorganic phosphate transmembrane transporter activity
APY29_RS14905	COG0581	inorganic phosphate transmembrane transporter activity
APY29_RS14910	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
APY29_RS14915	COG0704	Plays a role in the regulation of phosphate uptake
APY29_RS14925	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_RS14940	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
APY29_RS14950	COG0557	exoribonuclease II activity
APY29_RS14970	COG1960	acyl-CoA dehydrogenase activity
APY29_RS14975	COG1960	acyl-CoA dehydrogenase activity
APY29_RS14980	COG1960	acyl-CoA dehydrogenase activity
APY29_RS14985	COG2226	methyltransferase
APY29_RS14990	COG0646	methionine synthase
APY29_RS14990	COG1410	methionine synthase
APY29_RS14995	COG1410	methionine synthase
APY29_RS14995	COG0646	methionine synthase
APY29_RS15005	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_RS15030	COG2900	Belongs to the SlyX family
APY29_RS15045	COG0386	Belongs to the glutathione peroxidase family
APY29_RS15055	COG1725	Transcriptional regulator
APY29_RS15060	COG1131	(ABC) transporter
APY29_RS15090	COG1253	flavin adenine dinucleotide binding
APY29_RS15110	COG2850	peptidyl-arginine hydroxylation
APY29_RS15145	COG1132	(ABC) transporter
APY29_RS15150	COG0583	DNA-binding transcription factor activity
APY29_RS15190	COG0484	heat shock protein binding
APY29_RS15195	COG0443	Heat shock 70 kDa protein
APY29_RS15200	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_RS15205	COG1420	regulation of RNA biosynthetic process
APY29_RS15210	COG0497	DNA recombination
APY29_RS15220	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_RS15235	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_RS15295	COG3706	GGDEF domain
APY29_RS15340	COG0583	DNA-binding transcription factor activity
APY29_RS15355	COG0415	Belongs to the DNA photolyase family
APY29_RS15360	COG0305	Participates in initiation and elongation during chromosome replication
APY29_RS15370	COG0367	asparagine synthase
APY29_RS15390	COG1960	acyl-CoA dehydrogenase activity
APY29_RS15410	COG0084	hydrolase, TatD family'
APY29_RS15415	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
APY29_RS15470	COG0386	Belongs to the glutathione peroxidase family
APY29_RS15480	COG0339	signal peptide processing
APY29_RS15530	COG2814	Major facilitator Superfamily
APY29_RS15535	COG1566	PFAM secretion protein HlyD family protein
APY29_RS15560	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
APY29_RS15580	COG4774	siderophore transport
APY29_RS15590	COG0367	asparagine synthase
APY29_RS15595	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_RS15600	COG1393	Belongs to the ArsC family
APY29_RS15610	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_RS15650	COG0052	Belongs to the universal ribosomal protein uS2 family
APY29_RS15655	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_RS15665	COG0528	UMP kinase activity
APY29_RS15670	COG0233	cytoplasmic translational termination
APY29_RS15675	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
APY29_RS15680	COG0575	Belongs to the CDS family
APY29_RS15685	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
APY29_RS15690	COG0750	zinc metalloprotease
APY29_RS15705	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_RS15710	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APY29_RS15715	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
APY29_RS15720	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_RS15725	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
APY29_RS15735	COG0825	malonyl-CoA metabolic process
APY29_RS15750	COG1981	membrane
APY29_RS15770	COG1695	Transcriptional regulator
APY29_RS15790	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
APY29_RS15800	COG2040	homocysteine
APY29_RS15805	COG0833	amino acid
APY29_RS15810	COG0346	lactoylglutathione lyase activity
APY29_RS15815	COG1131	(ABC) transporter
APY29_RS15830	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_RS15830	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_RS15840	COG2878	Part of a membrane complex involved in electron transport
APY29_RS15855	COG1595	DNA-templated transcription, initiation
APY29_RS15880	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
APY29_RS15895	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
APY29_RS15900	COG0251	oxidation-reduction process
APY29_RS15910	COG0392	lysyltransferase activity
APY29_RS15910	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_RS15945	COG2814	Major facilitator Superfamily
APY29_RS15955	COG2824	Alkylphosphonate utilization operon protein PhnA
APY29_RS15965	COG1047	Peptidyl-prolyl cis-trans
APY29_RS15970	COG1077	Cell shape determining protein MreB Mrl
APY29_RS15985	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_RS15995	COG5487	UPF0391 membrane protein
APY29_RS16005	COG1451	nucleotide metabolic process
APY29_RS16030	COG0183	Belongs to the thiolase family
APY29_RS16065	COG1793	dna ligase
APY29_RS16065	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
APY29_RS16075	COG1793	dna ligase
APY29_RS16080	COG1201	RNA secondary structure unwinding
APY29_RS16090	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_RS16095	COG1278	Cold shock
APY29_RS16100	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_RS16105	COG0634	Belongs to the purine pyrimidine phosphoribosyltransferase family
APY29_RS16110	COG1472	Belongs to the glycosyl hydrolase 3 family
APY29_RS16115	COG3046	protein related to deoxyribodipyrimidine photolyase
APY29_RS16120	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_RS16125	COG2761	dithiol-disulfide isomerase involved in polyketide biosynthesis
APY29_RS16135	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
APY29_RS16145	COG1381	Involved in DNA repair and RecF pathway recombination
APY29_RS16150	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_RS16155	COG0571	ribonuclease III activity
APY29_RS16170	COG0481	GTPase activity
APY29_RS16175	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
APY29_RS16190	COG1250	3-hydroxyacyl-CoA dehydrogenase
APY29_RS16190	COG1024	Enoyl-CoA hydratase
APY29_RS16215	COG1960	acyl-CoA dehydrogenase activity
APY29_RS16235	COG3867	Arabinogalactan endo-beta-1,4-galactanase
APY29_RS16240	COG3250	beta-galactosidase activity
APY29_RS16300	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
APY29_RS16310	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
APY29_RS16330	COG0534	Mate efflux family protein
APY29_RS16335	COG0335	large ribosomal subunit rRNA binding
APY29_RS16340	COG0336	Belongs to the RNA methyltransferase TrmD family
APY29_RS16345	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_RS16350	COG0228	four-way junction DNA binding
APY29_RS16355	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
APY29_RS16365	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_RS16375	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
APY29_RS16405	COG4191	Histidine kinase
APY29_RS16405	COG0784	Response regulator, receiver
APY29_RS16410	COG2205	protein histidine kinase activity
APY29_RS16410	COG4999	Histidine kinase
APY29_RS16410	COG3850	Histidine kinase
APY29_RS16410	COG3437	response regulator, receiver
APY29_RS16415	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
APY29_RS16430	COG5507	3-demethylubiquinone-9 3-methyltransferase
APY29_RS16440	COG4771	TonB-dependent receptor
APY29_RS16465	COG2172	sigma factor antagonist activity
APY29_RS16470	COG1366	Belongs to the anti-sigma-factor antagonist family
APY29_RS16475	COG1366	Belongs to the anti-sigma-factor antagonist family
APY29_RS16490	COG0326	Molecular chaperone. Has ATPase activity
APY29_RS16495	COG2207	Transcriptional regulator
APY29_RS16505	COG3152	Membrane
APY29_RS16520	COG3125	oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor
APY29_RS16525	COG1845	cytochrome c oxidase, subunit III
APY29_RS16530	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_RS16575	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_RS16575	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
APY29_RS16675	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_RS16680	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
APY29_RS16685	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_RS16690	COG0196	riboflavin kinase activity
APY29_RS16695	COG0728	peptidoglycan biosynthetic process
APY29_RS16700	COG0268	Binds directly to 16S ribosomal RNA
APY29_RS16705	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_RS16710	COG0211	Belongs to the bacterial ribosomal protein bL27 family
APY29_RS16715	COG0261	This protein binds to 23S rRNA in the presence of protein L20
APY29_RS16720	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_RS16725	COG0824	Thioesterase
APY29_RS16740	COG1946	Acyl-CoA thioesterase
APY29_RS16765	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
APY29_RS16775	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_RS16810	COG0122	3-methyladenine DNA glycosylase 8-oxoguanine DNA glycosylase
APY29_RS16825	COG2197	response regulator
APY29_RS16830	COG4585	Histidine kinase
APY29_RS16845	COG0850	regulation of cytokinetic process
APY29_RS16850	COG2894	cell division
APY29_RS16855	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_RS16865	COG0642	Histidine kinase
APY29_RS16870	COG0745	RESPONSE REGULATOR receiver
APY29_RS16885	COG2194	sulfuric ester hydrolase activity
APY29_RS16900	COG2814	Major facilitator Superfamily
APY29_RS16905	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_RS16905	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_RS16915	COG0656	L-ascorbic acid biosynthetic process
APY29_RS16920	COG0753	catalase activity
APY29_RS16955	COG1917	Cupin 2, conserved barrel domain protein
APY29_RS16955	COG2207	Transcriptional regulator
APY29_RS16980	COG1506	peptidase
APY29_RS16980	COG0823	Involved in the tonB-independent uptake of proteins
APY29_RS16995	COG1297	OPT oligopeptide transporter protein
APY29_RS17015	COG0587	DNA-directed DNA polymerase activity
APY29_RS17030	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_RS17065	COG2080	2 iron, 2 sulfur cluster binding
APY29_RS17070	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
APY29_RS17075	COG1529	Aldehyde oxidase and xanthine dehydrogenase
APY29_RS17110	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS17120	COG3537	Alpha-1,2-mannosidase
APY29_RS17130	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS17150	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
APY29_RS17160	COG1309	transcriptional regulator
APY29_RS17180	COG2189	Belongs to the N(4) N(6)-methyltransferase family
APY29_RS17190	COG1196	nuclear chromosome segregation
APY29_RS17195	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_RS17220	COG1309	transcriptional regulator
APY29_RS17225	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS17235	COG0308	aminopeptidase N
APY29_RS17240	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_RS17250	COG0330	HflC and HflK could
APY29_RS17255	COG0330	HflC and HflK could
APY29_RS17275	COG0678	peroxiredoxin activity
APY29_RS17285	COG4953	penicillin-binding protein 1C
APY29_RS17300	COG2373	Large extracellular alpha-helical protein
APY29_RS17350	COG3829	transcription factor binding
APY29_RS17375	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
APY29_RS17380	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_RS17395	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS17410	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_RS17415	COG0333	Belongs to the bacterial ribosomal protein bL32 family
APY29_RS17420	COG1399	metal-binding, possibly nucleic acid-binding protein
APY29_RS17425	COG0424	maF-like protein
APY29_RS17445	COG0714	Associated with various cellular activities
APY29_RS17465	COG0537	adenosine 5'-monophosphoramidase activity
APY29_RS17470	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_RS17475	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
APY29_RS17480	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_RS17495	COG0314	molybdopterin synthase activity
APY29_RS17500	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
APY29_RS17505	COG0315	cyclic pyranopterin monophosphate synthase activity
APY29_RS17510	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
APY29_RS17515	COG1234	tRNA 3'-trailer cleavage
APY29_RS17520	COG3642	lipopolysaccharide core region biosynthetic process
APY29_RS17525	COG0859	PFAM glycosyl transferase family 9
APY29_RS17540	COG0631	protein serine/threonine phosphatase activity
APY29_RS17545	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_RS17550	COG0328	RNA-DNA hybrid ribonuclease activity
APY29_RS17560	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
APY29_RS17570	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_RS17600	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_RS17610	COG0544	peptidyl-prolyl cis-trans isomerase activity
APY29_RS17620	COG3852	Histidine kinase
APY29_RS17650	COG0473	3-isopropylmalate dehydrogenase activity
APY29_RS17665	COG4783	chaperone-mediated protein folding
APY29_RS17680	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
APY29_RS17695	COG0671	phosphoesterase, PA-phosphatase related
APY29_RS17700	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_RS17710	COG3291	Pkd domain containing protein
APY29_RS17750	COG0285	dihydrofolate synthase activity
APY29_RS17755	COG0406	alpha-ribazole phosphatase activity
APY29_RS17785	COG1063	alcohol dehydrogenase
APY29_RS17795	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
APY29_RS17800	COG4208	sulfate ABC transporter
APY29_RS17805	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
APY29_RS17810	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
APY29_RS17815	COG0156	8-amino-7-oxononanoate synthase activity
APY29_RS17845	COG0604	alcohol dehydrogenase
APY29_RS17850	COG0446	pyridine nucleotide-disulphide oxidoreductase
APY29_RS17850	COG1902	pentaerythritol trinitrate reductase activity
APY29_RS17870	COG0625	glutathione transferase activity
APY29_RS17875	COG0039	L-malate dehydrogenase activity
APY29_RS17880	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
APY29_RS17885	COG1217	gtp-binding protein TYPA
APY29_RS17905	COG3200	phospho-2-dehydro-3-deoxyheptonate aldolase
APY29_RS17925	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
APY29_RS17930	COG0203	ribosomal protein L17
APY29_RS17955	COG0201	protein transport
APY29_RS17960	COG0200	Binds to the 23S rRNA
APY29_RS17965	COG1841	ribosomal large subunit assembly
APY29_RS17975	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_RS17980	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_RS17985	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_RS17995	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_RS18000	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
APY29_RS18010	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
APY29_RS18015	COG0255	Belongs to the universal ribosomal protein uL29 family
APY29_RS18020	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
APY29_RS18025	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
APY29_RS18035	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
APY29_RS18040	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_RS18045	COG0089	rRNA binding
APY29_RS18050	COG0088	Forms part of the polypeptide exit tunnel
APY29_RS18055	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_RS18060	COG0051	transcription antitermination factor activity, RNA binding
APY29_RS18065	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
APY29_RS18070	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_RS18075	COG0049	tRNA binding
APY29_RS18080	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_RS18085	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
APY29_RS18090	COG0085	RNA polymerase activity
APY29_RS18095	COG0222	ribosome binding
APY29_RS18100	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
APY29_RS18105	COG0081	regulation of translation
APY29_RS18110	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
APY29_RS18115	COG0250	Participates in transcription elongation, termination and antitermination
APY29_RS18130	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
APY29_RS18150	COG0012	GTP binding
APY29_RS18155	COG0193	aminoacyl-tRNA hydrolase activity
APY29_RS18160	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_RS18165	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_RS18175	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
APY29_RS18180	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
APY29_RS18190	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
APY29_RS18195	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
APY29_RS18205	COG0521	Mo-molybdopterin cofactor biosynthetic process
APY29_RS18220	COG1254	Belongs to the acylphosphatase family
APY29_RS18225	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
APY29_RS18230	COG1295	ribonuclease BN
APY29_RS18255	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
APY29_RS18260	COG1404	Belongs to the peptidase S8 family
APY29_RS18275	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
APY29_RS18290	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
APY29_RS18315	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
APY29_RS18345	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
APY29_RS18345	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
APY29_RS18365	COG2890	protein-(glutamine-N5) methyltransferase activity
APY29_RS18375	COG3634	alkyl hydroperoxide reductase activity
APY29_RS18380	COG0583	DNA-binding transcription factor activity
APY29_RS18390	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_RS18395	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
APY29_RS18405	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_RS18415	COG2197	response regulator
APY29_RS18440	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_RS18450	COG0697	spore germination
APY29_RS18490	COG3386	PFAM SMP-30 Gluconolaconase
APY29_RS18510	COG1024	Enoyl-CoA hydratase
APY29_RS18520	COG0318	PFAM AMP-dependent synthetase and ligase
APY29_RS18525	COG0583	DNA-binding transcription factor activity
APY29_RS18530	COG3384	dioxygenase
APY29_RS18560	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_RS18565	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
APY29_RS18580	COG2096	Adenosyltransferase
APY29_RS18585	COG0123	including yeast histone deacetylase and acetoin utilization protein
APY29_RS18600	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
APY29_RS18605	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_RS18610	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_RS18615	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
APY29_RS18620	COG2967	ApaG domain
APY29_RS18625	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
APY29_RS18645	COG0747	negative chemotaxis
APY29_RS18670	COG0431	NADPH-dependent FMN reductase
APY29_RS18675	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
APY29_RS18685	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
APY29_RS18690	COG1116	anion transmembrane transporter activity
APY29_RS18700	COG3829	transcription factor binding
APY29_RS18715	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_RS18720	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
APY29_RS18740	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
APY29_RS18765	COG4181	ATPase activity
APY29_RS18775	COG2175	clavaminate synthase activity
APY29_RS18785	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
APY29_RS18790	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
APY29_RS18810	COG4771	TonB-dependent receptor
APY29_RS18820	COG0667	Aldo Keto reductase
APY29_RS18830	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
APY29_RS18835	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_RS18845	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_RS18850	COG4106	trans-aconitate 2-methyltransferase activity
APY29_RS18860	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_RS18900	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
APY29_RS18910	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
APY29_RS18915	COG2226	methyltransferase
APY29_RS18945	COG0366	Alpha amylase catalytic
APY29_RS18970	COG3321	synthase
APY29_RS18970	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS18970	COG0604	alcohol dehydrogenase
APY29_RS18985	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
APY29_RS18995	COG0494	nUDIX hydrolase
APY29_RS19000	COG0653	protein targeting
APY29_RS19005	COG0739	heme binding
APY29_RS19015	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
APY29_RS19030	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_RS19035	COG1181	Belongs to the D-alanine--D-alanine ligase family
APY29_RS19040	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
APY29_RS19045	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_RS19055	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
APY29_RS19060	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
APY29_RS19065	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_RS19075	COG3116	cell division
APY29_RS19080	COG0275	rRNA processing
APY29_RS19120	COG0792	nuclease activity
APY29_RS19125	COG1988	membrane-bound metal-dependent
APY29_RS19130	COG0277	FAD linked oxidase domain protein
APY29_RS19145	COG0745	RESPONSE REGULATOR receiver
APY29_RS19150	COG2205	protein histidine kinase activity
APY29_RS19165	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_RS19170	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_RS19175	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_RS19200	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
APY29_RS19205	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_RS19210	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
APY29_RS19235	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_RS19235	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_RS19245	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
APY29_RS19250	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_RS19260	COG0488	(ABC) transporter
APY29_RS19270	COG0697	spore germination
APY29_RS19280	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
APY29_RS19295	COG3791	Glutathione-dependent formaldehyde-activating
APY29_RS19325	COG2205	protein histidine kinase activity
APY29_RS19350	COG0218	Necessary for normal cell division and for the maintenance of normal septation
APY29_RS19365	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_RS19380	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
APY29_RS19385	COG1012	belongs to the aldehyde dehydrogenase family
APY29_RS19390	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_RS19395	COG0617	tRNA 3'-terminal CCA addition
APY29_RS19405	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
APY29_RS19410	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
APY29_RS19415	COG1609	Transcriptional regulator
APY29_RS19425	COG2188	Transcriptional regulator
APY29_RS19440	COG3250	beta-galactosidase activity
APY29_RS19470	COG4795	General secretion pathway protein
APY29_RS19490	COG1459	type II secretion system
APY29_RS19550	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
APY29_RS19555	COG4191	Histidine kinase
APY29_RS19560	COG0784	Response regulator, receiver
APY29_RS19565	COG4251	negative regulation of phosphorylation
APY29_RS19570	COG2823	Periplasmic or secreted lipoprotein
APY29_RS19580	COG1023	phosphogluconate dehydrogenase (decarboxylating) activity
APY29_RS19615	COG1051	belongs to the nudix hydrolase family
APY29_RS19615	COG1056	cytidyltransferase-related domain
APY29_RS19625	COG0583	DNA-binding transcription factor activity
APY29_RS19640	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_RS19645	COG0321	lipoyl(octanoyl) transferase activity
APY29_RS19650	COG2921	Belongs to the UPF0250 family
APY29_RS19660	COG1686	Belongs to the peptidase S11 family
APY29_RS19670	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
APY29_RS19675	COG2951	lytic endotransglycosylase activity
APY29_RS19685	COG0772	Belongs to the SEDS family
APY29_RS19700	COG1792	Involved in formation and maintenance of cell shape
APY29_RS19705	COG1077	Cell shape determining protein MreB Mrl
APY29_RS19710	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_RS19715	COG3284	Transcriptional regulator
APY29_RS19725	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
APY29_RS19765	COG0308	aminopeptidase N
APY29_RS19770	COG3300	MHYT domain
APY29_RS19770	COG5001	Diguanylate cyclase
APY29_RS19775	COG2226	methyltransferase
APY29_RS19800	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_RS19805	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
APY29_RS19810	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
APY29_RS19820	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_RS19830	COG2832	Protein of unknown function (DUF454)
APY29_RS19840	COG0436	Aminotransferase
APY29_RS19850	COG1505	serine-type exopeptidase activity
APY29_RS19880	COG0181	hydroxymethylbilane synthase activity
APY29_RS19890	COG3275	phosphorelay sensor kinase activity
APY29_RS19900	COG2943	transferase activity, transferring hexosyl groups
APY29_RS19925	COG0659	secondary active sulfate transmembrane transporter activity
APY29_RS19930	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
APY29_RS19930	COG5297	Belongs to the glycosyl hydrolase family 6
APY29_RS19935	COG0840	transmembrane signaling receptor activity
APY29_RS19940	COG5001	Diguanylate cyclase
APY29_RS19990	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_RS20010	COG1113	amino acid transport
APY29_RS20025	COG0697	spore germination
APY29_RS20070	COG1506	peptidase
APY29_RS20070	COG0823	Involved in the tonB-independent uptake of proteins
APY29_RS20080	COG2409	Drug exporters of the RND superfamily
APY29_RS20105	COG0435	Glutathione S-transferase
APY29_RS20115	COG4221	oxidoreductase activity
APY29_RS20130	COG4221	oxidoreductase activity
APY29_RS20220	COG0546	phosphoglycolate phosphatase activity
APY29_RS20225	COG1802	Transcriptional regulator
APY29_RS20235	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
APY29_RS20260	COG3052	prosthetic group binding
APY29_RS20290	COG2353	YceI-like domain
APY29_RS20295	COG0778	Nitroreductase
APY29_RS20315	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
APY29_RS20320	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
APY29_RS20330	COG3386	PFAM SMP-30 Gluconolaconase
APY29_RS20345	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
APY29_RS20360	COG0459	protein refolding
APY29_RS20375	COG2356	endonuclease I
APY29_RS20380	COG0300	oxidoreductase activity
APY29_RS20410	COG1324	tolerance protein
APY29_RS20420	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
APY29_RS20425	COG0511	ligase activity, forming carbon-carbon bonds
APY29_RS20435	COG0439	Biotin carboxylase
APY29_RS20465	COG2264	protein methyltransferase activity
APY29_RS20490	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
APY29_RS20495	COG4589	Belongs to the CDS family
APY29_RS20520	COG0671	phosphoesterase, PA-phosphatase related
APY29_RS20520	COG2453	phosphatase
APY29_RS20525	COG2267	carboxylic ester hydrolase activity
APY29_RS20530	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
APY29_RS20535	COG0138	bifunctional purine biosynthesis protein purh
APY29_RS20545	COG0151	Belongs to the GarS family
APY29_RS20555	COG1289	transmembrane transporter activity
APY29_RS20560	COG2814	Major facilitator Superfamily
APY29_RS20570	COG2814	Major facilitator Superfamily
APY29_RS20590	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
APY29_RS20610	COG0316	Belongs to the HesB IscA family
APY29_RS20650	COG1051	belongs to the nudix hydrolase family
APY29_RS20665	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
APY29_RS20675	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_RS20685	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_RS20690	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
APY29_RS20700	COG0134	indole-3-glycerol-phosphate synthase activity
APY29_RS20705	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
APY29_RS20730	COG1597	lipid kinase activity
APY29_RS20735	COG0456	acetyltransferase
APY29_RS20750	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
APY29_RS20755	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
APY29_RS20775	COG3179	chitinase
APY29_RS20795	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
APY29_RS20795	COG2111	Na H antiporter
APY29_RS20800	COG1006	Multisubunit Na H antiporter MnhC subunit
APY29_RS20805	COG0651	ATP synthesis coupled electron transport
APY29_RS20815	COG2212	antiporter activity
APY29_RS20820	COG1320	monovalent cation:proton antiporter activity
APY29_RS20840	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_RS20845	COG2852	Protein conserved in bacteria
APY29_RS20865	COG3104	oligopeptide transport
APY29_RS20870	COG3483	tryptophan 2,3-dioxygenase activity
APY29_RS20880	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
APY29_RS20895	COG0508	dehydrogenase complex catalyzes the overall conversion of
APY29_RS20900	COG0513	Belongs to the DEAD box helicase family
APY29_RS20910	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS20915	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
APY29_RS20950	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS20955	COG0702	epimerase
APY29_RS20980	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_RS20985	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_RS20990	COG0297	glycogen (starch) synthase activity
APY29_RS21000	COG2354	Protein conserved in bacteria
APY29_RS21005	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
APY29_RS21015	COG1368	sulfuric ester hydrolase activity
APY29_RS21020	COG1511	domain protein
APY29_RS21020	COG3264	Mechanosensitive ion channel
APY29_RS21090	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_RS21170	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_RS21175	COG1040	competence protein
APY29_RS21180	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
APY29_RS21185	COG0156	8-amino-7-oxononanoate synthase activity
APY29_RS21195	COG2267	carboxylic ester hydrolase activity
APY29_RS21225	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
APY29_RS21235	COG0445	tRNA wobble uridine modification
APY29_RS21255	COG1414	Transcriptional regulator
APY29_RS21265	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_RS21270	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
APY29_RS21280	COG3485	protocatechuate 3,4-dioxygenase
APY29_RS21295	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
APY29_RS21300	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
APY29_RS21325	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
APY29_RS21330	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
APY29_RS21390	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
APY29_RS21405	COG0129	dihydroxy-acid dehydratase activity
APY29_RS21460	COG1733	regulation of RNA biosynthetic process
APY29_RS21465	COG0702	epimerase
APY29_RS21500	COG0583	DNA-binding transcription factor activity
APY29_RS21505	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_RS21530	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
APY29_RS21535	COG2205	protein histidine kinase activity
APY29_RS21540	COG0745	RESPONSE REGULATOR receiver
APY29_RS21560	COG1902	pentaerythritol trinitrate reductase activity
APY29_RS21565	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_RS21580	COG2814	Major facilitator Superfamily
APY29_RS21615	COG0084	hydrolase, TatD family'
APY29_RS21640	COG2252	PERMEase
APY29_RS21650	COG1957	nucleoside hydrolase
APY29_RS21685	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
APY29_RS21705	COG2072	flavoprotein involved in K transport
APY29_RS21710	COG2351	hydroxyisourate hydrolase activity
APY29_RS21715	COG4807	Protein conserved in bacteria
APY29_RS21725	COG1643	Atp-dependent helicase
APY29_RS21740	COG1187	pseudouridine synthase activity
APY29_RS21755	COG2130	NADP-dependent
APY29_RS21785	COG1764	response to oxidative stress
APY29_RS21790	COG1846	Transcriptional regulator
APY29_RS21795	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
APY29_RS21805	COG0697	spore germination
APY29_RS21880	COG1960	acyl-CoA dehydrogenase activity
APY29_RS21885	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
APY29_RS21890	COG4770	biotin carboxylase activity
APY29_RS21920	COG2224	Isocitrate lyase
APY29_RS21925	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_RS21930	COG0583	DNA-binding transcription factor activity
APY29_RS21935	COG0475	glutathione-regulated potassium exporter activity
APY29_RS21965	COG0339	signal peptide processing
APY29_RS21970	COG1446	asparaginase
APY29_RS21990	COG0564	pseudouridine synthase activity
APY29_RS22000	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
APY29_RS22010	COG1181	Belongs to the D-alanine--D-alanine ligase family
APY29_RS22025	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
APY29_RS22035	COG0318	PFAM AMP-dependent synthetase and ligase
APY29_RS22040	COG0727	PFAM Uncharacterised protein family (UPF0153)
APY29_RS22045	COG0596	Alpha beta hydrolase
APY29_RS22055	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_RS22070	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_RS22095	COG2205	protein histidine kinase activity
APY29_RS22100	COG0028	Belongs to the TPP enzyme family
APY29_RS22115	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
APY29_RS22120	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_RS22125	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_RS22160	COG0183	Belongs to the thiolase family
APY29_RS22175	COG2032	superoxide dismutase activity
APY29_RS22180	COG2032	superoxide dismutase activity
APY29_RS22185	COG2204	response regulator
APY29_RS22190	COG3852	Histidine kinase
APY29_RS22195	COG0004	ammonium transporteR
APY29_RS22200	COG0347	Belongs to the P(II) protein family
APY29_RS22205	COG0174	glutamine synthetase
APY29_RS22210	COG1968	undecaprenyl-diphosphatase activity
APY29_RS22220	COG1881	PFAM PEBP family protein
APY29_RS22250	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_RS22260	COG2062	phosphohistidine phosphatase, SixA
APY29_RS22265	COG0489	protein tyrosine kinase activity
APY29_RS22290	COG1396	sequence-specific DNA binding
APY29_RS22310	COG1262	PFAM Formylglycine-generating sulfatase enzyme
APY29_RS22325	COG1125	glycine betaine transport
APY29_RS22340	COG1119	ATPase activity
APY29_RS22350	COG1752	Esterase of the alpha-beta hydrolase superfamily
APY29_RS22360	COG1522	sequence-specific DNA binding
APY29_RS22365	COG3186	Phenylalanine-4-hydroxylase
APY29_RS22380	COG2755	lipolytic protein G-D-S-L family
APY29_RS22390	COG1028	Short-chain dehydrogenase reductase Sdr
APY29_RS22395	COG3717	Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate
APY29_RS22405	COG1609	Transcriptional regulator
APY29_RS22410	COG3507	Belongs to the glycosyl hydrolase 43 family
APY29_RS22425	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
APY29_RS22435	COG2755	lipolytic protein G-D-S-L family
APY29_RS22435	COG0657	acetylesterase activity
APY29_RS22475	COG2911	Protein conserved in bacteria
APY29_RS22480	COG0729	surface antigen
APY29_RS22485	COG4771	TonB-dependent receptor
APY29_RS22490	COG0457	Tetratricopeptide repeat
APY29_RS22500	COG0752	glycyl-tRNA synthetase alpha subunit
APY29_RS22505	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
APY29_RS22520	COG0519	Catalyzes the synthesis of GMP from XMP
APY29_RS22520	COG0518	GMP synthase (glutamine-hydrolyzing) activity
APY29_RS22530	COG0805	protein transport
APY29_RS22535	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_RS22540	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_RS22550	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
APY29_RS22575	COG2974	May be involved in recombination
APY29_RS22580	COG0037	tRNA processing
APY29_RS22590	COG2115	Belongs to the xylose isomerase family
APY29_RS22600	COG3661	Belongs to the glycosyl hydrolase 67 family
APY29_RS22610	COG4948	Mandelate Racemase Muconate Lactonizing
APY29_RS22625	COG0246	Mannitol dehydrogenase
APY29_RS22675	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
APY29_RS22705	COG3386	PFAM SMP-30 Gluconolaconase
APY29_RS22715	COG3250	beta-galactosidase activity
APY29_RS22720	COG1904	glucuronate isomerase
APY29_RS22735	COG3693	PFAM glycoside hydrolase, family 10
APY29_RS22750	COG2211	Major facilitator Superfamily
APY29_RS22825	COG2937	Belongs to the GPAT DAPAT family
APY29_RS22860	COG0284	orotidine-5'-phosphate decarboxylase activity
APY29_RS22865	COG2503	HAD superfamily, subfamily IIIB (Acid phosphatase)
APY29_RS22875	COG3132	Protein of unknown function, DUF480
APY29_RS22890	COG0210	DNA helicase
APY29_RS22895	COG1435	thymidine kinase activity
APY29_RS22905	COG3131	Involved in the biosynthesis of osmoregulated periplasmic glucans (OPGs)
APY29_RS22915	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
APY29_RS22945	COG3135	benzoate transporter
APY29_RS22965	COG0676	glucose-6-phosphate 1-epimerase activity
APY29_RS22975	COG3012	SEC-C Motif Domain Protein
APY29_RS22980	COG0730	response to heat
APY29_RS23000	COG0302	gtp cyclohydrolase
APY29_RS23015	COG1566	PFAM secretion protein HlyD family protein
APY29_RS23025	COG1289	transmembrane transporter activity
APY29_RS23030	COG0477	Major facilitator Superfamily
APY29_RS23040	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
APY29_RS23060	COG4691	Plasmid stability protein
APY29_RS23110	COG0439	Biotin carboxylase
APY29_RS23155	COG1074	ATP-dependent DNA helicase activity
APY29_RS23160	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_RS23175	COG1127	ABC transporter
APY29_RS23180	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
APY29_RS23185	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
APY29_RS23200	COG2853	Lipoprotein
APY29_RS23210	COG0386	Belongs to the glutathione peroxidase family
APY29_RS23220	COG1322	Protein conserved in bacteria
APY29_RS23225	COG0604	alcohol dehydrogenase
APY29_RS23230	COG0583	DNA-binding transcription factor activity
APY29_RS23245	COG0625	glutathione transferase activity
APY29_RS23255	COG0531	amino acid
APY29_RS23260	COG3537	Alpha-1,2-mannosidase
APY29_RS23275	COG3706	GGDEF domain
APY29_RS23295	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
APY29_RS23305	COG0861	Integral membrane protein TerC family
APY29_RS23320	COG0584	glycerophosphoryl diester phosphodiesterase
APY29_RS23335	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_RS23340	COG0726	polysaccharide deacetylase
APY29_RS23345	COG0706	membrane insertase activity
APY29_RS23350	COG0594	ribonuclease P activity
APY29_RS23360	COG4644	lycopene metabolic process
APY29_RS23405	COG4456	Virulence-associated protein
APY29_RS23440	COG2951	lytic endotransglycosylase activity
APY29_RS23455	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
APY29_RS23475	COG3318	Belongs to the UPF0149 family
APY29_RS23475	COG3012	SEC-C Motif Domain Protein
APY29_RS23540	COG1192	Involved in chromosome partitioning
APY29_RS23645	COG1192	Involved in chromosome partitioning
APY29_RS23755	COG1192	Involved in chromosome partitioning