locus-tag	class	description
AFA_00010	COG0592	DNA-directed DNA polymerase activity
AFA_00030	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_00035	COG1012	belongs to the aldehyde dehydrogenase family
AFA_00045	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_00050	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
AFA_00065	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_00085	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
AFA_00090	COG0583	DNA-binding transcription factor activity
AFA_00100	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
AFA_00110	COG0559	Belongs to the binding-protein-dependent transport system permease family
AFA_00125	COG0318	PFAM AMP-dependent synthetase and ligase
AFA_00135	COG0508	dehydrogenase complex catalyzes the overall conversion of
AFA_00135	COG0596	Alpha beta hydrolase
AFA_00140	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
AFA_00155	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_00165	COG0697	spore germination
AFA_00170	COG0583	DNA-binding transcription factor activity
AFA_00180	COG3842	ATPase activity
AFA_00200	COG0523	cobalamin synthesis protein
AFA_00260	COG1846	Transcriptional regulator
AFA_00280	COG0179	Fumarylacetoacetate (FAA) hydrolase
AFA_00285	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
AFA_00290	COG1878	Catalyzes the hydrolysis of N-formyl-L-kynurenine to L- kynurenine, the second step in the kynurenine pathway of tryptophan degradation
AFA_00300	COG4638	Rieske (2fe-2S)
AFA_00325	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_00330	COG0477	Major facilitator Superfamily
AFA_00335	COG0789	Transcriptional regulator
AFA_00365	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_00375	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
AFA_00390	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
AFA_00410	COG4608	Belongs to the ABC transporter superfamily
AFA_00415	COG0444	Belongs to the ABC transporter superfamily
AFA_00420	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
AFA_00435	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
AFA_00440	COG1595	DNA-templated transcription, initiation
AFA_00445	COG3712	iron ion homeostasis
AFA_00450	COG4774	siderophore transport
AFA_00455	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
AFA_00460	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
AFA_00475	COG1464	Belongs to the NlpA lipoprotein family
AFA_00480	COG1464	Belongs to the NlpA lipoprotein family
AFA_00485	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
AFA_00490	COG2011	ABC-type metal ion transport system permease component
AFA_00520	COG1464	Belongs to the NlpA lipoprotein family
AFA_00535	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
AFA_00540	COG0431	NADPH-dependent FMN reductase
AFA_00570	COG4149	molybdate abc transporter
AFA_00580	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
AFA_00590	COG0775	Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively
AFA_00595	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
AFA_00615	COG0028	Belongs to the TPP enzyme family
AFA_00620	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
AFA_00660	COG2922	Belongs to the Smg family
AFA_00675	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
AFA_00680	COG0183	Belongs to the thiolase family
AFA_00685	COG4579	[isocitrate dehydrogenase (NADP+)] phosphatase activity
AFA_00690	COG1960	acyl-CoA dehydrogenase activity
AFA_00710	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
AFA_00720	COG0018	arginyl-trna synthetase
AFA_00750	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)
AFA_00760	COG1508	bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding
AFA_00765	COG4774	siderophore transport
AFA_00770	COG0066	3-isopropylmalate dehydratase activity
AFA_00775	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
AFA_00780	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)
AFA_00785	COG1804	L-carnitine dehydratase bile acid-inducible protein F
AFA_00790	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_00800	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
AFA_00805	COG1335	isochorismatase
AFA_00810	COG0583	DNA-binding transcription factor activity
AFA_00830	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
AFA_00835	COG1280	lysine exporter protein (LysE YggA)
AFA_00840	COG0513	Belongs to the DEAD box helicase family
AFA_00850	COG1512	COG1512 Beta-propeller domains of methanol dehydrogenase type
AFA_00865	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
AFA_00915	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
AFA_00920	COG1127	ABC transporter
AFA_00940	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
AFA_00945	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
AFA_00955	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_00990	COG0583	DNA-binding transcription factor activity
AFA_01015	COG1254	Belongs to the acylphosphatase family
AFA_01035	COG0564	pseudouridine synthase activity
AFA_01040	COG0252	asparaginase activity
AFA_01065	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
AFA_01070	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
AFA_01075	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_01090	COG0411	ABC transporter
AFA_01095	COG0559	Belongs to the binding-protein-dependent transport system permease family
AFA_01120	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
AFA_01135	COG0758	DNA mediated transformation
AFA_01140	COG0242	peptide deformylase activity
AFA_01145	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
AFA_01150	COG0697	spore germination
AFA_01165	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_01180	COG4336	lyase activity
AFA_01185	COG0583	DNA-binding transcription factor activity
AFA_01190	COG0859	PFAM glycosyl transferase family 9
AFA_01200	COG1278	Cold shock
AFA_01205	COG1210	Utp--glucose-1-phosphate uridylyltransferase
AFA_01210	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
AFA_01215	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
AFA_01215	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
AFA_01225	COG1686	Belongs to the peptidase S11 family
AFA_01235	COG2921	Belongs to the UPF0250 family
AFA_01240	COG0321	lipoyl(octanoyl) transferase activity
AFA_01245	COG1024	Enoyl-CoA hydratase
AFA_01250	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
AFA_01260	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
AFA_01345	COG0134	indole-3-glycerol-phosphate synthase activity
AFA_01350	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
AFA_01355	COG0512	Glutamine amidotransferase of anthranilate synthase
AFA_01365	COG0546	phosphoglycolate phosphatase activity
AFA_01380	COG2967	ApaG domain
AFA_01390	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
AFA_01395	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
AFA_01405	COG0840	transmembrane signaling receptor activity
AFA_01415	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_01420	COG3433	isochorismatase activity
AFA_01420	COG1535	isochorismatase
AFA_01425	COG1169	isochorismate synthase
AFA_01440	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
AFA_01445	COG1535	isochorismatase
AFA_01445	COG3433	isochorismatase activity
AFA_01450	COG1021	2,3-dihydroxybenzoate-AMP ligase
AFA_01460	COG0410	ABC transporter
AFA_01465	COG0411	ABC transporter
AFA_01480	COG0683	leucine binding
AFA_01495	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
AFA_01530	COG4559	Part of the ABC transporter complex HmuTUV involved in hemin import. Responsible for energy coupling to the transport system
AFA_01535	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
AFA_01540	COG2819	hydrolase of the alpha beta superfamily
AFA_01545	COG0513	Belongs to the DEAD box helicase family
AFA_01550	COG2814	Major facilitator Superfamily
AFA_01570	COG1253	flavin adenine dinucleotide binding
AFA_01595	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
AFA_01600	COG2311	Membrane
AFA_01625	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
AFA_01645	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
AFA_01650	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
AFA_01660	COG0583	DNA-binding transcription factor activity
AFA_01665	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
AFA_01670	COG1126	abc transporter atp-binding protein
AFA_01675	COG0765	amino acid transport
AFA_01680	COG0765	amino acid transport
AFA_01690	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
AFA_01705	COG3391	amine dehydrogenase activity
AFA_01715	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
AFA_01740	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
AFA_01745	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
AFA_01750	COG0210	DNA helicase
AFA_01770	COG0067	glutamate synthase
AFA_01770	COG0070	glutamate synthase
AFA_01770	COG0069	glutamate synthase activity
AFA_01775	COG1024	Enoyl-CoA hydratase
AFA_01785	COG1804	L-carnitine dehydratase bile acid-inducible protein F
AFA_01790	COG1250	3-hydroxyacyl-CoA dehydrogenase
AFA_01815	COG2918	glutathione biosynthetic process
AFA_01825	COG2197	response regulator
AFA_01830	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
AFA_01840	COG2223	nitrite transmembrane transporter activity
AFA_01845	COG2860	membrane
AFA_01850	COG1346	cytolysis
AFA_01865	COG0251	oxidation-reduction process
AFA_01900	COG1280	lysine exporter protein (LysE YggA)
AFA_01905	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
AFA_01920	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
AFA_01935	COG2096	Adenosyltransferase
AFA_01950	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
AFA_01955	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
AFA_01965	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
AFA_01970	COG0523	cobalamin synthesis protein
AFA_01975	COG0735	belongs to the Fur family
AFA_01985	COG1108	ABC-type Mn2 Zn2 transport systems permease components
AFA_01990	COG0803	Belongs to the bacterial solute-binding protein 9 family
AFA_01995	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
AFA_02005	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
AFA_02010	COG1560	Kdo2-lipid A biosynthetic process
AFA_02020	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
AFA_02025	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
AFA_02030	COG1950	PFAM Membrane protein of
AFA_02065	COG0275	rRNA processing
AFA_02070	COG0730	response to heat
AFA_02075	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
AFA_02080	COG0129	dihydroxy-acid dehydratase activity
AFA_02090	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
AFA_02100	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_02115	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
AFA_02135	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_02145	COG0628	permease
AFA_02155	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
AFA_02165	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
AFA_02190	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_02195	COG1846	Transcriptional regulator
AFA_02210	COG0277	FAD linked oxidase domain protein
AFA_02215	COG1304	FMN binding
AFA_02220	COG2186	Transcriptional regulator
AFA_02235	COG2188	Transcriptional regulator
AFA_02240	COG1522	sequence-specific DNA binding
AFA_02250	COG1113	amino acid transport
AFA_02255	COG1574	metal-dependent hydrolase with the TIM-barrel fold
AFA_02260	COG1349	DNA-binding transcription factor activity
AFA_02280	COG0395	ABC-type sugar transport system, permease component
AFA_02295	COG0861	Integral membrane protein TerC family
AFA_02300	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
AFA_02310	COG1671	Belongs to the UPF0178 family
AFA_02320	COG1418	mRNA catabolic process
AFA_02330	COG4948	Mandelate Racemase Muconate Lactonizing
AFA_02340	COG0477	Major facilitator Superfamily
AFA_02355	COG0154	amidase activity
AFA_02365	COG0583	DNA-binding transcription factor activity
AFA_02390	COG0326	Molecular chaperone. Has ATPase activity
AFA_02395	COG4774	siderophore transport
AFA_02400	COG3128	pkhd-type hydroxylase
AFA_02425	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
AFA_02435	COG1652	LysM domain
AFA_02450	COG0220	tRNA (guanine-N7-)-methyltransferase activity
AFA_02490	COG0583	DNA-binding transcription factor activity
AFA_02495	COG0387	Pfam Sodium calcium exchanger
AFA_02500	COG0745	RESPONSE REGULATOR receiver
AFA_02500	COG3706	GGDEF domain
AFA_02510	COG0477	Major facilitator Superfamily
AFA_02515	COG0235	Class ii aldolase
AFA_02525	COG3391	amine dehydrogenase activity
AFA_02530	COG0590	tRNA wobble adenosine to inosine editing
AFA_02535	COG3257	ureidoglycine aminohydrolase activity
AFA_02540	COG0583	DNA-binding transcription factor activity
AFA_02545	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
AFA_02550	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
AFA_02550	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
AFA_02560	COG0489	protein tyrosine kinase activity
AFA_02575	COG0717	Belongs to the dCTP deaminase family
AFA_02580	COG1982	Orn Lys Arg decarboxylase major
AFA_02585	COG2081	HI0933 family
AFA_02590	COG0509	glycine decarboxylation via glycine cleavage system
AFA_02600	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
AFA_02605	COG1765	OsmC-like protein
AFA_02610	COG3278	Belongs to the heme-copper respiratory oxidase family
AFA_02635	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
AFA_02640	COG0469	pyruvate kinase activity
AFA_02645	COG3193	protein, possibly involved in utilization of glycolate and propanediol
AFA_02655	COG2084	Dehydrogenase
AFA_02660	COG3622	Belongs to the hyi family
AFA_02665	COG3960	tartronate-semialdehyde synthase activity
AFA_02670	COG0583	DNA-binding transcription factor activity
AFA_02680	COG2233	PERMEase
AFA_02685	COG1942	4-Oxalocrotonate Tautomerase
AFA_02690	COG0235	Class ii aldolase
AFA_02700	COG3195	allantoin biosynthetic process
AFA_02700	COG3648	Uricase
AFA_02710	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
AFA_02715	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
AFA_02730	COG0438	transferase activity, transferring glycosyl groups
AFA_02740	COG0438	transferase activity, transferring glycosyl groups
AFA_02750	COG0277	FAD linked oxidase domain protein
AFA_02760	COG0179	Fumarylacetoacetate (FAA) hydrolase
AFA_02765	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
AFA_02775	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
AFA_02785	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
AFA_02795	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
AFA_02810	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)
AFA_02815	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
AFA_02820	COG0193	aminoacyl-tRNA hydrolase activity
AFA_02830	COG0012	GTP binding
AFA_02860	COG0488	(ABC) transporter
AFA_02870	COG0288	reversible hydration of carbon dioxide
AFA_02875	COG0583	DNA-binding transcription factor activity
AFA_02905	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
AFA_02915	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
AFA_02920	COG3088	subunit of a heme lyase
AFA_02925	COG4235	cytochrome complex assembly
AFA_02930	COG0785	Cytochrome C biogenesis protein
AFA_02940	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
AFA_02940	COG2169	Transcriptional regulator
AFA_02960	COG0559	Belongs to the binding-protein-dependent transport system permease family
AFA_02970	COG0411	ABC transporter
AFA_02975	COG0410	ABC transporter
AFA_02980	COG1858	cytochrome C peroxidase
AFA_02985	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
AFA_02990	COG1959	2 iron, 2 sulfur cluster binding
AFA_02995	COG2346	COG2346, Truncated hemoglobins
AFA_03000	COG0463	Glycosyl transferase, family 2
AFA_03035	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
AFA_03040	COG3383	formate dehydrogenase (NAD+) activity
AFA_03060	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
AFA_03070	COG0303	'Molybdopterin
AFA_03075	COG0521	Mo-molybdopterin cofactor biosynthetic process
AFA_03080	COG0314	molybdopterin synthase activity
AFA_03090	COG0315	cyclic pyranopterin monophosphate synthase activity
AFA_03120	COG0678	peroxiredoxin activity
AFA_03130	COG0697	spore germination
AFA_03135	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
AFA_03155	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFA_03200	COG0815	Transfers the fatty acyl group on membrane lipoproteins
AFA_03205	COG4535	Mg2 and Co2 transporter CorC
AFA_03210	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
AFA_03215	COG1702	phosphate starvation-inducible protein PhoH
AFA_03220	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
AFA_03230	COG0024	Methionine aminopeptidase
AFA_03235	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
AFA_03240	COG0342	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA
AFA_03245	COG1862	Preprotein translocase
AFA_03250	COG0343	queuine tRNA-ribosyltransferase activity
AFA_03255	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
AFA_03260	COG2027	D-alanyl-D-alanine carboxypeptidase
AFA_03265	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
AFA_03275	COG4575	ribosome binding
AFA_03290	COG0583	DNA-binding transcription factor activity
AFA_03305	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
AFA_03320	COG0154	amidase activity
AFA_03330	COG0477	Major facilitator Superfamily
AFA_03345	COG0043	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity
AFA_03355	COG0436	Aminotransferase
AFA_03365	COG0280	phosphate acetyltransferase
AFA_03365	COG0281	malic enzyme
AFA_03375	COG2732	(Barnase) inhibitor
AFA_03380	COG1385	rRNA (uridine-N3-)-methyltransferase activity
AFA_03385	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
AFA_03390	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
AFA_03395	COG0126	phosphoglycerate kinase activity
AFA_03420	COG0521	Mo-molybdopterin cofactor biosynthetic process
AFA_03430	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
AFA_03435	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
AFA_03440	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
AFA_03445	COG0009	L-threonylcarbamoyladenylate synthase
AFA_03450	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
AFA_03460	COG2030	dehydratase
AFA_03460	COG1012	belongs to the aldehyde dehydrogenase family
AFA_03465	COG1960	acyl-CoA dehydrogenase activity
AFA_03475	COG0405	Gamma-glutamyltransferase
AFA_03485	COG0579	oxidoreductase
AFA_03490	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
AFA_03495	COG0259	pyridoxamine-phosphate oxidase activity
AFA_03505	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
AFA_03520	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
AFA_03530	COG1215	transferase activity, transferring glycosyl groups
AFA_03540	COG0488	(ABC) transporter
AFA_03560	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
AFA_03565	COG2894	cell division
AFA_03575	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)
AFA_03585	COG1294	oxidase, subunit
AFA_03590	COG0038	chloride channel
AFA_03600	COG0514	ATP-dependent DNA helicase (RecQ)
AFA_03605	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
AFA_03610	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
AFA_03615	COG0633	Ferredoxin
AFA_03630	COG2001	Belongs to the MraZ family
AFA_03635	COG0275	rRNA processing
AFA_03640	COG3116	cell division
AFA_03650	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
AFA_03655	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
AFA_03660	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
AFA_03670	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)
AFA_03675	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
AFA_03680	COG1181	Belongs to the D-alanine--D-alanine ligase family
AFA_03685	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
AFA_03700	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
AFA_03710	COG1196	nuclear chromosome segregation
AFA_03710	COG0739	heme binding
AFA_03710	COG0741	lytic transglycosylase activity
AFA_03715	COG0653	protein targeting
AFA_03725	COG2239	Acts as a magnesium transporter
AFA_03730	COG1607	acyl-coa hydrolase
AFA_03735	COG1473	amidohydrolase
AFA_03740	COG0318	PFAM AMP-dependent synthetase and ligase
AFA_03750	COG4121	Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34
AFA_03750	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
AFA_03765	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
AFA_03770	COG2011	ABC-type metal ion transport system permease component
AFA_03780	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
AFA_03785	COG0765	amino acid transport
AFA_03790	COG1126	abc transporter atp-binding protein
AFA_03815	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
AFA_03820	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
AFA_03825	COG0700	Nucleoside recognition
AFA_03840	COG0204	Acyl-transferase
AFA_03845	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
AFA_03850	COG0751	glycine-tRNA ligase activity
AFA_03855	COG0752	glycyl-tRNA synthetase alpha subunit
AFA_03875	COG1309	transcriptional regulator
AFA_03885	COG2814	Major facilitator Superfamily
AFA_03895	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
AFA_03900	COG0617	tRNA 3'-terminal CCA addition
AFA_03910	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
AFA_03915	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
AFA_03920	COG1953	Uracil, thiamine, allantoin
AFA_03925	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)
AFA_03930	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
AFA_03935	COG0586	Pfam SNARE associated Golgi protein
AFA_03940	COG1477	protein flavinylation
AFA_03960	COG0860	N-Acetylmuramoyl-L-alanine amidase
AFA_03965	COG0802	atpase or kinase
AFA_03975	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_03980	COG0280	phosphate acetyltransferase
AFA_03980	COG0281	malic enzyme
AFA_03985	COG0583	DNA-binding transcription factor activity
AFA_03990	COG1012	belongs to the aldehyde dehydrogenase family
AFA_03995	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
AFA_04030	COG1733	regulation of RNA biosynthetic process
AFA_04035	COG2910	NAD(P)H-binding
AFA_04045	COG2223	nitrite transmembrane transporter activity
AFA_04050	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
AFA_04055	COG4974	Belongs to the 'phage' integrase family
AFA_04060	COG0725	ABC transporter, periplasmic molybdate-binding protein
AFA_04065	COG4149	molybdate abc transporter
AFA_04070	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
AFA_04105	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
AFA_04120	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
AFA_04125	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
AFA_04130	COG0505	Belongs to the CarA family
AFA_04135	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
AFA_04150	COG0406	alpha-ribazole phosphatase activity
AFA_04155	COG2233	PERMEase
AFA_04160	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
AFA_04165	COG1534	Rna-binding protein
AFA_04170	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
AFA_04175	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
AFA_04180	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
AFA_04185	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
AFA_04195	COG0248	Ppx GppA phosphatase
AFA_04200	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
AFA_04220	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
AFA_04225	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
AFA_04240	COG0745	RESPONSE REGULATOR receiver
AFA_04245	COG2205	protein histidine kinase activity
AFA_04260	COG0583	DNA-binding transcription factor activity
AFA_04280	COG1368	sulfuric ester hydrolase activity
AFA_04310	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
AFA_04315	COG3327	negative regulation of DNA-templated transcription, initiation
AFA_04335	COG0009	L-threonylcarbamoyladenylate synthase
AFA_04340	COG1994	Peptidase M50
AFA_04345	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
AFA_04350	COG3317	Gram-negative-bacterium-type cell outer membrane assembly
AFA_04365	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
AFA_04375	COG0156	8-amino-7-oxononanoate synthase activity
AFA_04380	COG2124	cytochrome p450
AFA_04385	COG3135	benzoate transporter
AFA_04390	COG2850	peptidyl-arginine hydroxylation
AFA_04395	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
AFA_04400	COG3391	amine dehydrogenase activity
AFA_04415	COG1136	(ABC) transporter
AFA_04415	COG0577	efflux transmembrane transporter activity
AFA_04420	COG1538	Outer membrane efflux protein
AFA_04425	COG0363	glucosamine-6-phosphate deaminase activity
AFA_04430	COG1132	(ABC) transporter
AFA_04450	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
AFA_04460	COG0668	transmembrane transport
AFA_04505	COG0154	amidase activity
AFA_04510	COG2031	fatty acid transporter
AFA_04530	COG1253	flavin adenine dinucleotide binding
AFA_04535	COG1968	undecaprenyl-diphosphatase activity
AFA_04540	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
AFA_04555	COG0215	cysteine-tRNA ligase activity
AFA_04565	COG0825	malonyl-CoA metabolic process
AFA_04570	COG0037	tRNA processing
AFA_04590	COG0330	HflC and HflK could
AFA_04600	COG4977	sequence-specific DNA binding
AFA_04605	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
AFA_04630	COG4208	sulfate ABC transporter
AFA_04635	COG3842	ATPase activity
AFA_04640	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
AFA_04645	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
AFA_04650	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
AFA_04675	COG1304	FMN binding
AFA_04680	COG0435	Glutathione S-transferase
AFA_04685	COG0655	NAD(P)H dehydrogenase (quinone) activity
AFA_04700	COG2094	Belongs to the DNA glycosylase MPG family
AFA_04710	COG2363	Small membrane protein
AFA_04715	COG0598	Magnesium transport protein CorA
AFA_04720	COG1960	acyl-CoA dehydrogenase activity
AFA_04730	COG0747	negative chemotaxis
AFA_04740	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
AFA_04745	COG4172	Belongs to the ABC transporter superfamily
AFA_04755	COG3284	Transcriptional regulator
AFA_04760	COG1012	belongs to the aldehyde dehydrogenase family
AFA_04765	COG1454	alcohol dehydrogenase
AFA_04770	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
AFA_04795	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
AFA_04825	COG3829	transcription factor binding
AFA_04830	COG0477	Major facilitator Superfamily
AFA_04840	COG0039	L-malate dehydrogenase activity
AFA_04845	COG2188	Transcriptional regulator
AFA_04850	COG2009	succinate dehydrogenase
AFA_04860	COG1053	succinate dehydrogenase
AFA_04865	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
AFA_04870	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
AFA_04875	COG0372	Belongs to the citrate synthase family
AFA_04880	COG2186	Transcriptional regulator
AFA_04885	COG1620	l-lactate permease
AFA_04890	COG0281	malic enzyme
AFA_04890	COG0280	phosphate acetyltransferase
AFA_04895	COG0567	Dehydrogenase, E1 component
AFA_04900	COG0508	dehydrogenase complex catalyzes the overall conversion of
AFA_04905	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
AFA_04910	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
AFA_04930	COG2183	response to ionizing radiation
AFA_04935	COG1199	ATP-dependent helicase activity
AFA_04940	COG0659	secondary active sulfate transmembrane transporter activity
AFA_04950	COG4121	Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34
AFA_04950	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
AFA_04980	COG0564	pseudouridine synthase activity
AFA_04990	COG3243	poly(R)-hydroxyalkanoic acid synthase
AFA_04995	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_05000	COG5394	Polyhydroxyalkanoate synthesis repressor PhaR
AFA_05025	COG3772	lysozyme
AFA_05085	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
AFA_05090	COG1187	pseudouridine synthase activity
AFA_05095	COG0779	Required for maturation of 30S ribosomal subunits
AFA_05100	COG2251	uridine kinase activity
AFA_05100	COG0195	Participates in both transcription termination and antitermination
AFA_05110	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
AFA_05115	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
AFA_05125	COG0446	pyridine nucleotide-disulphide oxidoreductase
AFA_05135	COG4160	amino acid transport
AFA_05140	COG4215	(ABC) transporter
AFA_05160	COG1283	sodium-dependent phosphate transmembrane transporter activity
AFA_05165	COG0501	Belongs to the peptidase M48B family
AFA_05180	COG1722	exodeoxyribonuclease VII activity
AFA_05185	COG0142	geranyltranstransferase activity
AFA_05190	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)
AFA_05195	COG1469	GTP cyclohydrolase I activity
AFA_05200	COG0360	Binds together with S18 to 16S ribosomal RNA
AFA_05205	COG2965	DNA replication, synthesis of RNA primer
AFA_05210	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
AFA_05215	COG0359	binds to the 23S rRNA
AFA_05220	COG0305	Participates in initiation and elongation during chromosome replication
AFA_05230	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)
AFA_05235	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
AFA_05240	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
AFA_05250	COG0436	Aminotransferase
AFA_05270	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
AFA_05275	COG3349	Catalyzes the conversion of zeta-carotene to lycopene via the intermediary of neurosporene. It carries out two consecutive desaturations (introduction of double bonds) at positions C-7 and C-7'
AFA_05280	COG1562	ergosterol biosynthetic process
AFA_05285	COG1562	ergosterol biosynthetic process
AFA_05290	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
AFA_05295	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_05320	COG3842	ATPase activity
AFA_05325	COG1176	ABC-type spermidine putrescine transport system, permease component I
AFA_05330	COG1177	transmembrane transport
AFA_05335	COG1393	Belongs to the ArsC family
AFA_05340	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
AFA_05345	COG0704	Plays a role in the regulation of phosphate uptake
AFA_05350	COG4251	negative regulation of phosphorylation
AFA_05350	COG2203	Gaf domain
AFA_05350	COG5001	Diguanylate cyclase
AFA_05350	COG3706	GGDEF domain
AFA_05355	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
AFA_05360	COG1246	Belongs to the acetyltransferase family. ArgA subfamily
AFA_05360	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
AFA_05365	COG1643	Atp-dependent helicase
AFA_05375	COG0438	transferase activity, transferring glycosyl groups
AFA_05380	COG0726	polysaccharide deacetylase
AFA_05395	COG0297	glycogen (starch) synthase activity
AFA_05420	COG1132	(ABC) transporter
AFA_05435	COG1530	ribonuclease E activity
AFA_05470	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
AFA_05490	COG2186	Transcriptional regulator
AFA_05495	COG0277	FAD linked oxidase domain protein
AFA_05500	COG0277	FAD linked oxidase domain protein
AFA_05505	COG0247	lactate metabolic process
AFA_05535	COG2159	amidohydrolase
AFA_05550	COG0583	DNA-binding transcription factor activity
AFA_05555	COG0477	Major facilitator Superfamily
AFA_05615	COG1283	sodium-dependent phosphate transmembrane transporter activity
AFA_05630	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
AFA_05640	COG0697	spore germination
AFA_05660	COG3094	Invasion gene expression up-regulator, SirB
AFA_05670	COG0640	Transcriptional regulator
AFA_05695	COG0659	secondary active sulfate transmembrane transporter activity
AFA_05700	COG1262	PFAM Formylglycine-generating sulfatase enzyme
AFA_05710	COG2314	TM2 domain
AFA_05715	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
AFA_05720	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
AFA_05725	COG0791	NLP P60 protein
AFA_05745	COG1360	Flagellar Motor Protein
AFA_05755	COG0835	chemotaxis
AFA_05760	COG0840	transmembrane signaling receptor activity
AFA_05765	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
AFA_05775	COG0745	RESPONSE REGULATOR receiver
AFA_05780	COG3143	Plays an important role in bacterial chemotaxis signal transduction pathway by accelerating the dephosphorylation of phosphorylated CheY (CheY-P)
AFA_05785	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
AFA_05790	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
AFA_05800	COG3550	peptidyl-serine autophosphorylation
AFA_05825	COG1815	bacterial-type flagellum-dependent cell motility
AFA_05830	COG1558	bacterial-type flagellum-dependent cell motility
AFA_05835	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
AFA_05840	COG1749	Flagellar hook protein flgE
AFA_05850	COG4786	Flagellar basal body rod
AFA_05860	COG1706	bacterial-type flagellum-dependent cell motility
AFA_05870	COG1256	bacterial-type flagellum assembly
AFA_05875	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
AFA_05890	COG0840	transmembrane signaling receptor activity
AFA_05910	COG1987	bacterial-type flagellum assembly
AFA_05925	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
AFA_05945	COG2882	bacterial-type flagellum organization
AFA_05950	COG1157	protein secretion by the type III secretion system
AFA_05960	COG1536	FliG is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
AFA_05965	COG1766	The M ring may be actively involved in energy transduction
AFA_05970	COG1677	Flagellar hook-basal body complex protein FliE
AFA_05975	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
AFA_06000	COG1334	flagellar protein FlaG
AFA_06005	COG1191	sigma factor activity
AFA_06060	COG1262	PFAM Formylglycine-generating sulfatase enzyme
AFA_06080	COG2733	membrane
AFA_06085	COG0840	transmembrane signaling receptor activity
AFA_06090	COG0840	transmembrane signaling receptor activity
AFA_06115	COG2610	gluconate transmembrane transporter activity
AFA_06125	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_06135	COG2824	Alkylphosphonate utilization operon protein PhnA
AFA_06150	COG4771	TonB-dependent receptor
AFA_06155	COG1858	cytochrome C peroxidase
AFA_06160	COG1454	alcohol dehydrogenase
AFA_06180	COG0668	transmembrane transport
AFA_06185	COG1113	amino acid transport
AFA_06190	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
AFA_06230	COG0446	pyridine nucleotide-disulphide oxidoreductase
AFA_06255	COG1278	Cold shock
AFA_06280	COG0515	serine threonine protein kinase
AFA_06280	COG2815	serine threonine protein kinase
AFA_06375	COG0642	Histidine kinase
AFA_06380	COG0745	RESPONSE REGULATOR receiver
AFA_06385	COG3278	Belongs to the heme-copper respiratory oxidase family
AFA_06395	COG2863	cytochrome
AFA_06400	COG3258	Cytochrome c
AFA_06405	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
AFA_06410	COG4774	siderophore transport
AFA_06455	COG1289	transmembrane transporter activity
AFA_06460	COG2252	PERMEase
AFA_06465	COG0560	Phosphoserine phosphatase
AFA_06480	COG1999	signal sequence binding
AFA_06490	COG0069	glutamate synthase activity
AFA_06500	COG1846	Transcriptional regulator
AFA_06505	COG1058	Belongs to the CinA family
AFA_06505	COG1546	Belongs to the CinA family
AFA_06510	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
AFA_06550	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_06560	COG1012	belongs to the aldehyde dehydrogenase family
AFA_06575	COG2128	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
AFA_06585	COG3264	Mechanosensitive ion channel
AFA_06585	COG1511	domain protein
AFA_06590	COG3264	Mechanosensitive ion channel
AFA_06590	COG1511	domain protein
AFA_06595	COG0477	Major facilitator Superfamily
AFA_06610	COG1396	sequence-specific DNA binding
AFA_06615	COG3437	response regulator, receiver
AFA_06625	COG2239	Acts as a magnesium transporter
AFA_06635	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
AFA_06640	COG1490	D-aminoacyl-tRNA deacylase activity
AFA_06655	COG0456	acetyltransferase
AFA_06660	COG3012	SEC-C Motif Domain Protein
AFA_06665	COG0501	Belongs to the peptidase M48B family
AFA_06865	COG5410	chromosome segregation
AFA_06985	COG3772	lysozyme
AFA_07005	COG2135	peptidase activity
AFA_07155	COG3772	lysozyme
AFA_07210	COG3706	GGDEF domain
AFA_07225	COG1522	sequence-specific DNA binding
AFA_07230	COG0626	cystathionine gamma-synthase activity
AFA_07240	COG0494	nUDIX hydrolase
AFA_07245	COG2832	Protein of unknown function (DUF454)
AFA_07255	COG0137	argininosuccinate synthase activity
AFA_07260	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
AFA_07285	COG1609	Transcriptional regulator
AFA_07290	COG0519	Catalyzes the synthesis of GMP from XMP
AFA_07290	COG0518	GMP synthase (glutamine-hydrolyzing) activity
AFA_07300	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
AFA_07310	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
AFA_07315	COG2205	protein histidine kinase activity
AFA_07320	COG0745	RESPONSE REGULATOR receiver
AFA_07325	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
AFA_07335	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
AFA_07340	COG0268	Binds directly to 16S ribosomal RNA
AFA_07345	COG0728	peptidoglycan biosynthetic process
AFA_07355	COG0563	adenylate kinase activity
AFA_07360	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
AFA_07365	COG2835	tetraacyldisaccharide 4'-kinase activity
AFA_07370	COG1663	tetraacyldisaccharide 4'-kinase activity
AFA_07380	COG0811	peptide transport
AFA_07385	COG1570	exodeoxyribonuclease VII activity
AFA_07390	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
AFA_07400	COG0183	Belongs to the thiolase family
AFA_07410	COG1278	Cold shock
AFA_07415	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
AFA_07420	COG0542	response to heat
AFA_07425	COG2995	paraquat-inducible protein a
AFA_07430	COG3008	intermembrane lipid transfer
AFA_07430	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
AFA_07460	COG0411	ABC transporter
AFA_07495	COG3129	Specifically methylates the adenine in position 1618 of 23S rRNA
AFA_07500	COG0756	dUTP diphosphatase activity
AFA_07510	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
AFA_07515	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)
AFA_07520	COG0196	riboflavin kinase activity
AFA_07525	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
AFA_07530	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
AFA_07530	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
AFA_07540	COG0210	DNA helicase
AFA_07565	COG0488	(ABC) transporter
AFA_07570	COG2890	protein-(glutamine-N5) methyltransferase activity
AFA_07575	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
AFA_07580	COG2171	N-acyltransferase activity
AFA_07590	COG2207	Transcriptional regulator
AFA_07600	COG3273	potassium ion transport
AFA_07600	COG0471	metal ion transport
AFA_07645	COG0789	Transcriptional regulator
AFA_07665	COG1804	L-carnitine dehydratase bile acid-inducible protein F
AFA_07670	COG0544	peptidyl-prolyl cis-trans isomerase activity
AFA_07675	COG0740	serine-type endopeptidase activity
AFA_07680	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
AFA_07685	COG0466	ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner
AFA_07695	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
AFA_07705	COG0556	nucleotide-excision repair
AFA_07710	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
AFA_07715	COG1959	2 iron, 2 sulfur cluster binding
AFA_07720	COG1104	cysteine desulfurase activity
AFA_07730	COG0316	Belongs to the HesB IscA family
AFA_07745	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
AFA_07750	COG4221	oxidoreductase activity
AFA_07760	COG0840	transmembrane signaling receptor activity
AFA_07765	COG0361	One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre- initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initation complex
AFA_07770	COG0697	spore germination
AFA_07775	COG0385	Bile acid
AFA_07785	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
AFA_07800	COG1136	(ABC) transporter
AFA_07805	COG0084	hydrolase, TatD family'
AFA_07815	COG0596	Alpha beta hydrolase
AFA_07820	COG0613	PHP domain protein
AFA_07830	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
AFA_07830	COG0047	phosphoribosylformylglycinamidine synthase activity
AFA_07845	COG0518	GMP synthase (glutamine-hydrolyzing) activity
AFA_07845	COG0519	Catalyzes the synthesis of GMP from XMP
AFA_07870	COG4691	Plasmid stability protein
AFA_07905	COG0798	PFAM Bile acid sodium symporter
AFA_07945	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
AFA_07965	COG0583	DNA-binding transcription factor activity
AFA_07985	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
AFA_07995	COG1960	acyl-CoA dehydrogenase activity
AFA_08005	COG2378	regulation of single-species biofilm formation
AFA_08010	COG0523	cobalamin synthesis protein
AFA_08015	COG1469	GTP cyclohydrolase I activity
AFA_08020	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
AFA_08030	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
AFA_08035	COG0735	belongs to the Fur family
AFA_08040	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
AFA_08050	COG0494	nUDIX hydrolase
AFA_08055	COG1942	4-Oxalocrotonate Tautomerase
AFA_08070	COG2070	2-Nitropropane dioxygenase
AFA_08100	COG0625	glutathione transferase activity
AFA_08105	COG0583	DNA-binding transcription factor activity
AFA_08125	COG0625	glutathione transferase activity
AFA_08130	COG0740	serine-type endopeptidase activity
AFA_08180	COG1804	L-carnitine dehydratase bile acid-inducible protein F
AFA_08190	COG1960	acyl-CoA dehydrogenase activity
AFA_08210	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
AFA_08215	COG0640	Transcriptional regulator
AFA_08235	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)
AFA_08250	COG3485	protocatechuate 3,4-dioxygenase
AFA_08260	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
AFA_08265	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
AFA_08275	COG3135	benzoate transporter
AFA_08280	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
AFA_08285	COG0699	ATPase. Has a role at an early stage in the morphogenesis of the spore coat
AFA_08300	COG4555	ABC transporter
AFA_08310	COG2197	response regulator
AFA_08345	COG1846	Transcriptional regulator
AFA_08350	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
AFA_08355	COG2271	Major facilitator Superfamily
AFA_08365	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
AFA_08375	COG0697	spore germination
AFA_08405	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
AFA_08410	COG0667	Aldo Keto reductase
AFA_08425	COG1272	protein, Hemolysin III
AFA_08430	COG3422	double-strand break repair
AFA_08440	COG0477	Major facilitator Superfamily
AFA_08445	COG0154	amidase activity
AFA_08480	COG0765	amino acid transport
AFA_08485	COG1126	abc transporter atp-binding protein
AFA_08540	COG2871	sodium ion transport
AFA_08580	COG2814	Major facilitator Superfamily
AFA_08590	COG1280	lysine exporter protein (LysE YggA)
AFA_08610	COG0402	S-adenosylhomocysteine deaminase activity
AFA_08630	COG0330	HflC and HflK could
AFA_08635	COG1585	Membrane protein implicated in regulation of membrane protease activity
AFA_08640	COG2226	methyltransferase
AFA_08650	COG3042	response to heat
AFA_08660	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
AFA_08670	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)
AFA_08675	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
AFA_08680	COG0189	ligase activity
AFA_08690	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
AFA_08695	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)
AFA_08725	COG0291	Belongs to the bacterial ribosomal protein bL35 family
AFA_08730	COG0292	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit
AFA_08735	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
AFA_08740	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
AFA_08740	COG0072	phenylalanine-tRNA ligase activity
AFA_08745	COG0776	regulation of translation
AFA_08755	COG2833	Protein of unknown function (DUF455)
AFA_08765	COG5265	(ABC) transporter
AFA_08770	COG1959	2 iron, 2 sulfur cluster binding
AFA_08775	COG0719	Fe-S assembly protein
AFA_08780	COG0396	ATPase activity
AFA_08785	COG0719	Fe-S assembly protein
AFA_08795	COG0822	iron-sulfur transferase activity
AFA_08800	COG2151	metal-sulfur cluster biosynthetic enzyme
AFA_08815	COG1462	curli production assembly transport component CsgG
AFA_08835	COG1215	transferase activity, transferring glycosyl groups
AFA_08840	COG1649	PFAM Uncharacterised BCR, COG1649
AFA_08840	COG0726	polysaccharide deacetylase
AFA_08845	COG0457	Tetratricopeptide repeat
AFA_08860	COG1278	Cold shock
AFA_08910	COG0747	negative chemotaxis
AFA_08915	COG0601	transmembrane transport
AFA_08920	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
AFA_08925	COG4172	Belongs to the ABC transporter superfamily
AFA_08935	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
AFA_08985	COG0604	alcohol dehydrogenase
AFA_08990	COG2207	Transcriptional regulator
AFA_09000	COG3949	Membrane
AFA_09010	COG1262	PFAM Formylglycine-generating sulfatase enzyme
AFA_09025	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
AFA_09030	COG0569	domain protein
AFA_09035	COG1902	pentaerythritol trinitrate reductase activity
AFA_09045	COG1610	YqeY-like protein
AFA_09050	COG0587	DNA-directed DNA polymerase activity
AFA_09080	COG2988	succinylglutamate desuccinylase activity
AFA_09085	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_09090	COG0583	DNA-binding transcription factor activity
AFA_09095	COG1686	Belongs to the peptidase S11 family
AFA_09120	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_09130	COG4221	oxidoreductase activity
AFA_09135	COG0307	riboflavin synthase, alpha
AFA_09150	COG1301	dicarboxylic acid transport
AFA_09155	COG4191	Histidine kinase
AFA_09165	COG0583	DNA-binding transcription factor activity
AFA_09170	COG1053	succinate dehydrogenase
AFA_09220	COG2233	PERMEase
AFA_09225	COG0071	Belongs to the small heat shock protein (HSP20) family
AFA_09265	COG1846	Transcriptional regulator
AFA_09270	COG2816	NAD+ diphosphatase activity
AFA_09275	COG1561	YicC-like family, N-terminal region
AFA_09290	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
AFA_09295	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
AFA_09300	COG0635	Involved in the biosynthesis of porphyrin-containing compound
AFA_09310	COG2153	protein acetylation
AFA_09330	COG3842	ATPase activity
AFA_09335	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
AFA_09340	COG1840	ABC-type Fe3 transport system, periplasmic component
AFA_09355	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)
AFA_09365	COG0783	Belongs to the Dps family
AFA_09375	COG3842	ATPase activity
AFA_09380	COG0395	ABC-type sugar transport system, permease component
AFA_09385	COG1175	transmembrane transport
AFA_09390	COG1653	transport
AFA_09405	COG0559	Belongs to the binding-protein-dependent transport system permease family
AFA_09415	COG0411	ABC transporter
AFA_09430	COG0625	glutathione transferase activity
AFA_09440	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
AFA_09445	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_09455	COG0114	fumarate hydratase activity
AFA_09460	COG2133	pyrroloquinoline quinone binding
AFA_09465	COG2226	methyltransferase
AFA_09470	COG0589	response to stress
AFA_09480	COG2807	transmembrane transport
AFA_09490	COG0583	DNA-binding transcription factor activity
AFA_09510	COG4974	Belongs to the 'phage' integrase family
AFA_09520	COG2132	Multicopper oxidase
AFA_09670	COG0515	serine threonine protein kinase
AFA_09670	COG2815	serine threonine protein kinase
AFA_09705	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
AFA_09745	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
AFA_09765	COG2003	Belongs to the UPF0758 family
AFA_09820	COG1160	GTP binding
AFA_09835	COG1196	nuclear chromosome segregation
AFA_09885	COG2894	cell division
AFA_09945	COG3501	Rhs element vgr protein
AFA_09990	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_09995	COG1683	Conserved Protein
AFA_10030	COG3038	cytochrome b561
AFA_10045	COG1393	Belongs to the ArsC family
AFA_10050	COG0625	glutathione transferase activity
AFA_10070	COG0084	hydrolase, TatD family'
AFA_10075	COG0470	DNA polymerase III
AFA_10085	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
AFA_10090	COG0354	folic acid binding
AFA_10105	COG1960	acyl-CoA dehydrogenase activity
AFA_10110	COG2914	Belongs to the UPF0125 (RnfH) family
AFA_10115	COG2867	negative regulation of translational initiation
AFA_10120	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
AFA_10125	COG1252	NADH dehydrogenase
AFA_10140	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
AFA_10150	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
AFA_10155	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
AFA_10160	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
AFA_10170	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
AFA_10175	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
AFA_10185	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
AFA_10195	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
AFA_10200	COG0575	Belongs to the CDS family
AFA_10205	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
AFA_10210	COG0233	cytoplasmic translational termination
AFA_10215	COG0528	UMP kinase activity
AFA_10220	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
AFA_10225	COG0052	Belongs to the universal ribosomal protein uS2 family
AFA_10230	COG0024	Methionine aminopeptidase
AFA_10235	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
AFA_10260	COG1286	toxin biosynthetic process
AFA_10270	COG0285	dihydrofolate synthase activity
AFA_10275	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
AFA_10280	COG0508	dehydrogenase complex catalyzes the overall conversion of
AFA_10285	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
AFA_10300	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
AFA_10310	COG1999	signal sequence binding
AFA_10315	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
AFA_10325	COG0640	Transcriptional regulator
AFA_10340	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_10345	COG3090	Trap-type c4-dicarboxylate transport system, small permease component
AFA_10350	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
AFA_10355	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
AFA_10360	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_10385	COG0183	Belongs to the thiolase family
AFA_10405	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
AFA_10410	COG1538	Outer membrane efflux protein
AFA_10415	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFA_10420	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFA_10425	COG3638	Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system
AFA_10445	COG0183	Belongs to the thiolase family
AFA_10450	COG0183	Belongs to the thiolase family
AFA_10460	COG2513	Catalyzes the thermodynamically favored C-C bond cleavage of (2R,3S)-2-methylisocitrate to yield pyruvate and succinate
AFA_10465	COG0583	DNA-binding transcription factor activity
AFA_10470	COG1982	Orn Lys Arg decarboxylase major
AFA_10490	COG0194	GDP metabolic process
AFA_10495	COG1758	RNA polymerase activity
AFA_10500	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
AFA_10510	COG1296	Branched-chain amino acid permease (Azaleucine resistance)
AFA_10515	COG0739	heme binding
AFA_10520	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
AFA_10525	COG0584	glycerophosphoryl diester phosphodiesterase
AFA_10530	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
AFA_10535	COG1187	pseudouridine synthase activity
AFA_10540	COG3161	chorismate lyase activity
AFA_10545	COG2814	Major facilitator Superfamily
AFA_10550	COG0656	L-ascorbic acid biosynthetic process
AFA_10560	COG0668	transmembrane transport
AFA_10565	COG0165	Argininosuccinate lyase
AFA_10580	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
AFA_10590	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
AFA_10600	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
AFA_10605	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
AFA_10610	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
AFA_10615	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
AFA_10620	COG2252	PERMEase
AFA_10625	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
AFA_10645	COG0488	(ABC) transporter
AFA_10650	COG1619	proteins homologs of microcin C7 resistance protein MccF
AFA_10655	COG0590	tRNA wobble adenosine to inosine editing
AFA_10660	COG1131	(ABC) transporter
AFA_10665	COG0842	Transport permease protein
AFA_10680	COG3090	Trap-type c4-dicarboxylate transport system, small permease component
AFA_10685	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
AFA_10690	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
AFA_10700	COG2022	thiamine diphosphate biosynthetic process
AFA_10720	COG1414	Transcriptional regulator
AFA_10730	COG0730	response to heat
AFA_10740	COG1666	GTP binding
AFA_10745	COG0318	PFAM AMP-dependent synthetase and ligase
AFA_10750	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
AFA_10755	COG0518	GMP synthase (glutamine-hydrolyzing) activity
AFA_10755	COG0519	Catalyzes the synthesis of GMP from XMP
AFA_10760	COG2207	Transcriptional regulator
AFA_10775	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
AFA_10780	COG0135	phosphoribosylanthranilate isomerase activity
AFA_10785	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_10795	COG0101	tRNA pseudouridine synthase activity
AFA_10805	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
AFA_10810	COG0473	3-isopropylmalate dehydrogenase activity
AFA_10815	COG0066	3-isopropylmalate dehydratase activity
AFA_10820	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
AFA_10825	COG2128	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
AFA_10835	COG4566	intracellular signal transduction
AFA_10850	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
AFA_10855	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
AFA_10865	COG1295	ribonuclease BN
AFA_10875	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
AFA_10910	COG4964	Belongs to the GSP D family
AFA_10945	COG3712	iron ion homeostasis
AFA_10950	COG1595	DNA-templated transcription, initiation
AFA_10960	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
AFA_10970	COG2959	enzyme of heme biosynthesis
AFA_10980	COG0181	hydroxymethylbilane synthase activity
AFA_10985	COG0861	Integral membrane protein TerC family
AFA_10990	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
AFA_10995	COG0045	succinate-CoA ligase (ADP-forming) activity
AFA_11005	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
AFA_11010	COG0583	DNA-binding transcription factor activity
AFA_11015	COG2137	regulation of response to DNA damage stimulus
AFA_11035	COG0477	Major facilitator Superfamily
AFA_11050	COG0318	PFAM AMP-dependent synthetase and ligase
AFA_11055	COG1024	Enoyl-CoA hydratase
AFA_11060	COG3162	membrane
AFA_11075	COG0540	Belongs to the ATCase OTCase family
AFA_11090	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
AFA_11105	COG2070	2-Nitropropane dioxygenase
AFA_11110	COG0635	Involved in the biosynthesis of porphyrin-containing compound
AFA_11115	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
AFA_11115	COG2111	Na H antiporter
AFA_11120	COG1006	Multisubunit Na H antiporter MnhC subunit
AFA_11125	COG0651	ATP synthesis coupled electron transport
AFA_11135	COG2212	antiporter activity
AFA_11150	COG3158	transport of potassium into the cell
AFA_11155	COG0642	Histidine kinase
AFA_11180	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
AFA_11185	COG4208	sulfate ABC transporter
AFA_11190	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
AFA_11195	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
AFA_11210	COG1278	Cold shock
AFA_11230	COG0776	regulation of translation
AFA_11235	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
AFA_11235	COG1648	precorrin-2 dehydrogenase activity
AFA_11240	COG2010	Cytochrome c
AFA_11265	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
AFA_11275	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
AFA_11275	COG1648	precorrin-2 dehydrogenase activity
AFA_11285	COG2010	Cytochrome c
AFA_11290	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
AFA_11295	COG0626	cystathionine gamma-synthase activity
AFA_11300	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
AFA_11305	COG0557	exoribonuclease II activity
AFA_11335	COG2375	cellular response to nickel ion
AFA_11365	COG0583	DNA-binding transcription factor activity
AFA_11370	COG3842	ATPase activity
AFA_11380	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
AFA_11385	COG1840	ABC-type Fe3 transport system, periplasmic component
AFA_11410	COG3530	Putative quorum-sensing-regulated virulence factor
AFA_11415	COG0625	glutathione transferase activity
AFA_11425	COG1741	Belongs to the pirin family
AFA_11435	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
AFA_11440	COG2814	Major facilitator Superfamily
AFA_11445	COG2807	transmembrane transport
AFA_11450	COG2207	Transcriptional regulator
AFA_11455	COG3135	benzoate transporter
AFA_11465	COG1540	5-oxoprolinase (ATP-hydrolyzing) activity
AFA_11480	COG1529	Aldehyde oxidase and xanthine dehydrogenase
AFA_11490	COG0402	S-adenosylhomocysteine deaminase activity
AFA_11500	COG0745	RESPONSE REGULATOR receiver
AFA_11505	COG2205	protein histidine kinase activity
AFA_11510	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
AFA_11520	COG0828	Belongs to the bacterial ribosomal protein bS21 family
AFA_11525	COG2236	Acts on guanine, xanthine and to a lesser extent hypoxanthine
AFA_11530	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
AFA_11535	COG3705	Required for the first step of histidine biosynthesis. May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
AFA_11540	COG0330	HflC and HflK could
AFA_11545	COG0330	HflC and HflK could
AFA_11550	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
AFA_11555	COG1923	regulation of RNA biosynthetic process
AFA_11565	COG1160	GTP binding
AFA_11570	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
AFA_11575	COG2976	Protein conserved in bacteria
AFA_11580	COG0124	histidyl-tRNA synthetase
AFA_11585	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
AFA_11595	COG0820	rRNA (adenine-C2-)-methyltransferase activity
AFA_11600	COG0105	UTP biosynthetic process
AFA_11615	COG0336	Belongs to the RNA methyltransferase TrmD family
AFA_11620	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
AFA_11625	COG0228	four-way junction DNA binding
AFA_11630	COG0425	Belongs to the sulfur carrier protein TusA family
AFA_11635	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
AFA_11650	COG2351	hydroxyisourate hydrolase activity
AFA_11675	COG1653	transport
AFA_11680	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
AFA_11695	COG0187	DNA topoisomerase II activity
AFA_11705	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
AFA_11710	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
AFA_11725	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
AFA_11730	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)
AFA_11735	COG0542	response to heat
AFA_11740	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
AFA_11755	COG0348	domain, Protein
AFA_11775	COG3278	Belongs to the heme-copper respiratory oxidase family
AFA_11785	COG2217	Heavy metal translocating P-type atpase
AFA_11795	COG2224	Isocitrate lyase
AFA_11800	COG2904	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
AFA_11800	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
AFA_11815	COG0322	excinuclease ABC activity
AFA_11820	COG1472	Belongs to the glycosyl hydrolase 3 family
AFA_11825	COG0736	holo-[acyl-carrier-protein] synthase activity
AFA_11835	COG2050	protein possibly involved in aromatic compounds catabolism
AFA_11840	COG1024	Enoyl-CoA hydratase
AFA_11845	COG1012	belongs to the aldehyde dehydrogenase family
AFA_11850	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
AFA_11855	COG2151	metal-sulfur cluster biosynthetic enzyme
AFA_11860	COG3396	Phenylacetate-CoA oxygenase
AFA_11865	COG3460	Phenylacetate-CoA oxygenase
AFA_11870	COG3396	Phenylacetate-CoA oxygenase
AFA_11875	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
AFA_11880	COG0501	Belongs to the peptidase M48B family
AFA_11885	COG1162	GTPase activity
AFA_11895	COG0335	large ribosomal subunit rRNA binding
AFA_11910	COG0450	alkyl hydroperoxide reductase
AFA_11915	COG1960	acyl-CoA dehydrogenase activity
AFA_11935	COG2951	lytic endotransglycosylase activity
AFA_11950	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
AFA_11955	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
AFA_11960	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
AFA_11980	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
AFA_11985	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
AFA_11990	COG0287	Prephenate dehydrogenase
AFA_12000	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
AFA_12015	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
AFA_12035	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
AFA_12045	COG4771	TonB-dependent receptor
AFA_12060	COG0753	catalase activity
AFA_12070	COG4335	DNA alkylation repair
AFA_12075	COG1846	Transcriptional regulator
AFA_12080	COG0436	Aminotransferase
AFA_12085	COG1309	transcriptional regulator
AFA_12120	COG0625	glutathione transferase activity
AFA_12200	COG2948	multi-organism process
AFA_12245	COG0433	COG0433 Predicted ATPase
AFA_12300	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
AFA_12325	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
AFA_12340	COG1136	(ABC) transporter
AFA_12340	COG0577	efflux transmembrane transporter activity
AFA_12350	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFA_12355	COG1309	transcriptional regulator
AFA_12375	COG3596	GTP binding
AFA_12385	COG4974	Belongs to the 'phage' integrase family
AFA_12400	COG1280	lysine exporter protein (LysE YggA)
AFA_12425	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
AFA_12435	COG5002	protein histidine kinase activity
AFA_12440	COG2046	Belongs to the sulfate adenylyltransferase family
AFA_12445	COG2814	Major facilitator Superfamily
AFA_12455	COG0583	DNA-binding transcription factor activity
AFA_12460	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
AFA_12475	COG0840	transmembrane signaling receptor activity
AFA_12480	COG2119	membrane
AFA_12495	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
AFA_12500	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
AFA_12515	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
AFA_12520	COG2321	neutral zinc metallopeptidase
AFA_12530	COG0347	Belongs to the P(II) protein family
AFA_12535	COG0004	ammonium transporteR
AFA_12540	COG3909	cytochrome
AFA_12550	COG0625	glutathione transferase activity
AFA_12560	COG0657	acetylesterase activity
AFA_12565	COG0730	response to heat
AFA_12570	COG0482	sulfurtransferase activity
AFA_12575	COG0277	FAD linked oxidase domain protein
AFA_12580	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
AFA_12585	COG2879	small protein
AFA_12590	COG1966	Carbon starvation protein
AFA_12595	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
AFA_12600	COG0765	amino acid transport
AFA_12605	COG0765	amino acid transport
AFA_12610	COG1126	abc transporter atp-binding protein
AFA_12625	COG5285	phytanoyl-CoA dioxygenase
AFA_12630	COG0662	Cupin 2, conserved barrel domain protein
AFA_12635	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
AFA_12645	COG1846	Transcriptional regulator
AFA_12660	COG0312	modulator of DNA gyrase
AFA_12675	COG0308	aminopeptidase N
AFA_12680	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
AFA_12695	COG0473	3-isopropylmalate dehydrogenase activity
AFA_12705	COG0433	COG0433 Predicted ATPase
AFA_12710	COG0217	transcriptional regulatory protein
AFA_12715	COG0151	Belongs to the GarS family
AFA_12720	COG0408	coproporphyrinogen oxidase activity
AFA_12725	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
AFA_12730	COG0799	negative regulation of ribosome biogenesis
AFA_12735	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
AFA_12740	COG0424	maF-like protein
AFA_12760	COG0023	Translation Initiation Factor
AFA_12770	COG2084	Dehydrogenase
AFA_12775	COG0625	glutathione transferase activity
AFA_12780	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
AFA_12785	COG1047	Peptidyl-prolyl cis-trans
AFA_12790	COG2003	Belongs to the UPF0758 family
AFA_12795	COG0254	rRNA binding
AFA_12805	COG0534	Mate efflux family protein
AFA_12810	COG4175	Glycine betaine
AFA_12815	COG4176	ABC-type proline glycine betaine transport system permease component
AFA_12825	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
AFA_12830	COG2814	Major facilitator Superfamily
AFA_12835	COG0227	Belongs to the bacterial ribosomal protein bL28 family
AFA_12840	COG0267	Belongs to the bacterial ribosomal protein bL33 family
AFA_12845	COG0495	leucyl-tRNA aminoacylation
AFA_12855	COG1466	dna polymerase III delta subunit
AFA_12860	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
AFA_12880	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
AFA_12890	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
AFA_12895	COG0148	phosphopyruvate hydratase activity
AFA_12905	COG2814	Major facilitator Superfamily
AFA_12925	COG0504	CTP synthase activity
AFA_12960	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
AFA_12970	COG0791	NLP P60 protein
AFA_12980	COG0583	DNA-binding transcription factor activity
AFA_12990	COG0583	DNA-binding transcription factor activity
AFA_12995	COG4774	siderophore transport
AFA_13005	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
AFA_13020	COG1309	transcriptional regulator
AFA_13030	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
AFA_13045	COG1045	serine acetyltransferase
AFA_13060	COG1381	Involved in DNA repair and RecF pathway recombination
AFA_13065	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
AFA_13070	COG0571	ribonuclease III activity
AFA_13080	COG0481	GTPase activity
AFA_13085	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
AFA_13110	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
AFA_13120	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_13125	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
AFA_13130	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
AFA_13135	COG0416	fatty acid biosynthetic process
AFA_13140	COG0333	Belongs to the bacterial ribosomal protein bL32 family
AFA_13145	COG1399	metal-binding, possibly nucleic acid-binding protein
AFA_13150	COG0424	maF-like protein
AFA_13160	COG3023	N-Acetylmuramoyl-L-alanine amidase
AFA_13165	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
AFA_13170	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
AFA_13175	COG0546	phosphoglycolate phosphatase activity
AFA_13180	COG0564	pseudouridine synthase activity
AFA_13185	COG1530	ribonuclease E activity
AFA_13190	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
AFA_13195	COG0159	tryptophan synthase activity
AFA_13200	COG0133	tryptophan synthase activity
AFA_13205	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
AFA_13215	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
AFA_13220	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
AFA_13230	COG2878	Part of a membrane complex involved in electron transport
AFA_13235	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
AFA_13245	COG3047	cAMP biosynthetic process
AFA_13255	COG0411	ABC transporter
AFA_13270	COG0229	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
AFA_13275	COG2917	probably involved in intracellular septation
AFA_13285	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
AFA_13290	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
AFA_13300	COG1196	nuclear chromosome segregation
AFA_13310	COG1573	uracil-dna glycosylase
AFA_13315	COG1214	PFAM Peptidase M22, glycoprotease
AFA_13320	COG0745	RESPONSE REGULATOR receiver
AFA_13325	COG2205	protein histidine kinase activity
AFA_13335	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
AFA_13340	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
AFA_13350	COG0560	Phosphoserine phosphatase
AFA_13365	COG1007	ATP synthesis coupled electron transport
AFA_13380	COG0713	ATP synthesis coupled electron transport
AFA_13390	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
AFA_13395	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
AFA_13400	COG1034	ATP synthesis coupled electron transport
AFA_13415	COG0649	NAD binding
AFA_13420	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
AFA_13425	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
AFA_13430	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
AFA_13435	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
AFA_13450	COG0149	triose-phosphate isomerase activity
AFA_13455	COG0604	alcohol dehydrogenase
AFA_13480	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
AFA_13485	COG1183	phosphatidylcholine synthase activity
AFA_13490	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
AFA_13495	COG0440	acetolactate synthase activity
AFA_13500	COG0028	Belongs to the TPP enzyme family
AFA_13505	COG1289	transmembrane transporter activity
AFA_13510	COG3022	response to hydroperoxide
AFA_13515	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_13540	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)
AFA_13545	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
AFA_13550	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)
AFA_13555	COG1674	ftsk spoiiie
AFA_13560	COG0492	ferredoxin-NADP+ reductase activity
AFA_13580	COG0477	Major facilitator Superfamily
AFA_13600	COG2272	Belongs to the type-B carboxylesterase lipase family
AFA_13605	COG1960	acyl-CoA dehydrogenase activity
AFA_13630	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
AFA_13650	COG2204	response regulator
AFA_13690	COG4964	Belongs to the GSP D family
AFA_13750	COG0612	Peptidase, M16
AFA_13755	COG0484	heat shock protein binding
AFA_13760	COG0443	Heat shock 70 kDa protein
AFA_13765	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
AFA_13770	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
AFA_13775	COG1420	regulation of RNA biosynthetic process
AFA_13780	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
AFA_13785	COG0497	DNA recombination
AFA_13790	COG0735	belongs to the Fur family
AFA_13795	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
AFA_13800	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
AFA_13810	COG0812	UDP-N-acetylmuramate dehydrogenase activity
AFA_13830	COG3300	MHYT domain
AFA_13830	COG5001	Diguanylate cyclase
AFA_13845	COG2814	Major facilitator Superfamily
AFA_13860	COG2819	hydrolase of the alpha beta superfamily
AFA_13870	COG3905	.,Oxidizes proline to glutamate for use as a carbon and nitrogen source
AFA_13870	COG0506	proline dehydrogenase activity
AFA_13870	COG4230	.,Oxidizes proline to glutamate for use as a carbon and nitrogen source
AFA_13875	COG1522	sequence-specific DNA binding
AFA_13885	COG2423	ornithine cyclodeaminase activity
AFA_13890	COG0477	Major facilitator Superfamily
AFA_13895	COG0513	Belongs to the DEAD box helicase family
AFA_13900	COG3657	addiction module killer protein
AFA_13905	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
AFA_13910	COG0583	DNA-binding transcription factor activity
AFA_13915	COG4638	Rieske (2fe-2S)
AFA_13935	COG0446	pyridine nucleotide-disulphide oxidoreductase
AFA_13955	COG4569	acetaldehyde dehydrogenase (acetylating) activity
AFA_13960	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)
AFA_13965	COG2814	Major facilitator Superfamily
AFA_13980	COG0154	amidase activity
AFA_13985	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
AFA_13990	COG2814	Major facilitator Superfamily
AFA_14020	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_14030	COG0842	Transport permease protein
AFA_14035	COG0842	Transport permease protein
AFA_14035	COG1129	ABC transporter
AFA_14040	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFA_14045	COG1538	Outer membrane efflux protein
AFA_14050	COG3243	poly(R)-hydroxyalkanoic acid synthase
AFA_14055	COG1309	transcriptional regulator
AFA_14060	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
AFA_14065	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
AFA_14070	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
AFA_14085	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
AFA_14100	COG0505	Belongs to the CarA family
AFA_14105	COG2240	Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP
AFA_14115	COG0789	Transcriptional regulator
AFA_14125	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFA_14175	COG3278	Belongs to the heme-copper respiratory oxidase family
AFA_14180	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
AFA_14200	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
AFA_14230	COG2885	chlorophyll binding
AFA_14230	COG3637	Has lipid A 3-O-deacylase activity. Hydrolyzes the ester bond at the 3 position of lipid A, a bioactive component of lipopolysaccharide (LPS), thereby releasing the primary fatty acyl moiety
AFA_14240	COG2200	EAL domain
AFA_14240	COG2202	Pas domain
AFA_14240	COG2199	diguanylate cyclase activity
AFA_14245	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
AFA_14310	COG0517	IMP dehydrogenase activity
AFA_14310	COG0516	GMP reductase activity
AFA_14325	COG1027	Aspartate ammonia-lyase
AFA_14330	COG1846	Transcriptional regulator
AFA_14340	COG0494	nUDIX hydrolase
AFA_14345	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
AFA_14350	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
AFA_14365	COG1414	Transcriptional regulator
AFA_14385	COG0513	Belongs to the DEAD box helicase family
AFA_14405	COG0429	hydrolase of the alpha beta-hydrolase fold
AFA_14410	COG4783	chaperone-mediated protein folding
AFA_14430	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
AFA_14440	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
AFA_14450	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
AFA_14455	COG0632	four-way junction helicase activity
AFA_14465	COG2255	four-way junction helicase activity
AFA_14475	COG0418	dihydroorotase activity
AFA_14485	COG0415	Belongs to the DNA photolyase family
AFA_14545	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
AFA_14580	COG1177	transmembrane transport
AFA_14585	COG3842	ATPase activity
AFA_14590	COG1840	ABC-type Fe3 transport system, periplasmic component
AFA_14595	COG2084	Dehydrogenase
AFA_14610	COG0494	nUDIX hydrolase
AFA_14615	COG0442	prolyl-tRNA aminoacylation
AFA_14620	COG0824	Thioesterase
AFA_14625	COG0811	peptide transport
AFA_14640	COG0823	Involved in the tonB-independent uptake of proteins
AFA_14670	COG0534	Mate efflux family protein
AFA_14690	COG1129	ABC transporter
AFA_14710	COG0427	acetyl-CoA hydrolase
AFA_14715	COG0583	DNA-binding transcription factor activity
AFA_14725	COG3634	alkyl hydroperoxide reductase activity
AFA_14740	COG0697	spore germination
AFA_14745	COG0175	sulfate reduction
AFA_14755	COG2895	sulfate adenylyltransferase (ATP) activity
AFA_14765	COG1012	belongs to the aldehyde dehydrogenase family
AFA_14770	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
AFA_14775	COG5383	Protein conserved in bacteria
AFA_14785	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
AFA_14800	COG0583	DNA-binding transcription factor activity
AFA_14805	COG1741	Belongs to the pirin family
AFA_14810	COG3706	GGDEF domain
AFA_14815	COG0154	amidase activity
AFA_14825	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
AFA_14830	COG0459	protein refolding
AFA_14840	COG0284	orotidine-5'-phosphate decarboxylase activity
AFA_14855	COG1414	Transcriptional regulator
AFA_14865	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
AFA_14870	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
AFA_14875	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
AFA_14880	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
AFA_14905	COG0742	ribosomal rna small subunit methyltransferase
AFA_14910	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
AFA_14915	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
AFA_14945	COG5581	Acts as a flagellar brake, regulating swimming and swarming in a bis-(3'-5') cyclic diguanylic acid (c-di-GMP)- dependent manner. Binds 1 c-di-GMP dimer per subunit. Increasing levels of c-di-GMP lead to decreased motility
AFA_14960	COG1335	isochorismatase
AFA_14965	COG2309	aminopeptidase activity
AFA_14970	COG0596	Alpha beta hydrolase
AFA_14975	COG1529	Aldehyde oxidase and xanthine dehydrogenase
AFA_14975	COG2010	Cytochrome c
AFA_14980	COG2080	2 iron, 2 sulfur cluster binding
AFA_14985	COG2010	Cytochrome c
AFA_14985	COG1529	Aldehyde oxidase and xanthine dehydrogenase
AFA_14995	COG0410	ABC transporter
AFA_15000	COG0411	ABC transporter
AFA_15010	COG0683	leucine binding
AFA_15020	COG3706	GGDEF domain
AFA_15035	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_15045	COG1234	tRNA 3'-trailer cleavage
AFA_15060	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
AFA_15070	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
AFA_15070	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
AFA_15075	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
AFA_15075	COG3608	succinylglutamate desuccinylase aspartoacylase
AFA_15080	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
AFA_15105	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
AFA_15130	COG1335	isochorismatase
AFA_15135	COG2309	aminopeptidase activity
AFA_15140	COG0596	Alpha beta hydrolase
AFA_15155	COG1120	ATPase activity
AFA_15170	COG4206	TonB-dependent receptor
AFA_15175	COG2031	fatty acid transporter
AFA_15190	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
AFA_15195	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFA_15200	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFA_15205	COG0328	RNA-DNA hybrid ribonuclease activity
AFA_15210	COG2226	methyltransferase
AFA_15215	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
AFA_15220	COG0741	lytic transglycosylase activity
AFA_15220	COG1388	LysM domain
AFA_15230	COG2204	response regulator
AFA_15235	COG4191	Histidine kinase
AFA_15240	COG1301	dicarboxylic acid transport
AFA_15270	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
AFA_15295	COG0604	alcohol dehydrogenase
AFA_15305	COG1024	Enoyl-CoA hydratase
AFA_15325	COG1902	pentaerythritol trinitrate reductase activity
AFA_15350	COG0583	DNA-binding transcription factor activity
AFA_15355	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
AFA_15360	COG1454	alcohol dehydrogenase
AFA_15380	COG0583	DNA-binding transcription factor activity
AFA_15420	COG1393	Belongs to the ArsC family
AFA_15425	COG0431	NADPH-dependent FMN reductase
AFA_15430	COG0745	RESPONSE REGULATOR receiver
AFA_15435	COG0642	Histidine kinase
AFA_15455	COG2814	Major facilitator Superfamily
AFA_15480	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
AFA_15480	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
AFA_15485	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
AFA_15490	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
AFA_15495	COG1881	PFAM PEBP family protein
AFA_15500	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)
AFA_15505	COG0739	heme binding
AFA_15510	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
AFA_15525	COG0316	Belongs to the HesB IscA family
AFA_15535	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
AFA_15540	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
AFA_15545	COG0102	This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly
AFA_15550	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
AFA_15555	COG0312	modulator of DNA gyrase
AFA_15560	COG3028	Belongs to the UPF0307 family
AFA_15590	COG4566	intracellular signal transduction
AFA_15595	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)
AFA_15600	COG4681	YaeQ
AFA_15625	COG0762	integral membrane protein
AFA_15630	COG2169	Transcriptional regulator
AFA_15630	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
AFA_15635	COG3133	Outer membrane lipoprotein
AFA_15650	COG2264	protein methyltransferase activity
AFA_15655	COG0439	Biotin carboxylase
AFA_15660	COG0511	ligase activity, forming carbon-carbon bonds
AFA_15665	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
AFA_15670	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
AFA_15675	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
AFA_15680	COG3150	esterase
AFA_15695	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)
AFA_15700	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
AFA_15710	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
AFA_15720	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
AFA_15725	COG1678	Uncharacterized ACR, COG1678
AFA_15740	COG0352	thiamine-phosphate diphosphorylase activity
AFA_15745	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
AFA_15760	COG1364	Catalyzes two activities which are involved in the cyclic version of arginine biosynthesis the synthesis of N- acetylglutamate from glutamate and acetyl-CoA as the acetyl donor, and of ornithine by transacetylation between N(2)-acetylornithine and glutamate
AFA_15770	COG3237	CsbD-like
AFA_15775	COG0261	This protein binds to 23S rRNA in the presence of protein L20
AFA_15780	COG0211	Belongs to the bacterial ribosomal protein bL27 family
AFA_15785	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
AFA_15790	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
AFA_15815	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
AFA_15830	COG1126	abc transporter atp-binding protein
AFA_15835	COG0765	amino acid transport
AFA_15840	COG4597	amino acid ABC transporter
AFA_15845	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
AFA_15850	COG2884	Cell division ATP-binding protein ftsE
AFA_15855	COG2177	Part of the ABC transporter FtsEX involved in
AFA_15865	COG0772	Belongs to the SEDS family
AFA_15870	COG0768	penicillin binding
AFA_15880	COG1792	Involved in formation and maintenance of cell shape
AFA_15885	COG1077	Cell shape determining protein MreB Mrl
AFA_15890	COG0721	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
AFA_15895	COG0154	amidase activity
AFA_15900	COG0064	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
AFA_15910	COG0583	DNA-binding transcription factor activity
AFA_15915	COG2259	Doxx family
AFA_15920	COG3384	dioxygenase
AFA_15930	COG3245	cytochrome
AFA_15940	COG1846	Transcriptional regulator
AFA_15945	COG1960	acyl-CoA dehydrogenase activity
AFA_15950	COG2814	Major facilitator Superfamily
AFA_15960	COG1024	Enoyl-CoA hydratase
AFA_15975	COG3604	Transcriptional regulator
AFA_15995	COG1309	transcriptional regulator
AFA_16010	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
AFA_16035	COG1090	epimerase
AFA_16040	COG0786	glutamate:sodium symporter activity
AFA_16045	COG0142	geranyltranstransferase activity
AFA_16055	COG0494	nUDIX hydrolase
AFA_16060	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
AFA_16085	COG4582	Cell division factor that enhances FtsZ-ring assembly. Directly interacts with FtsZ and promotes bundling of FtsZ protofilaments, with a reduction in FtsZ GTPase activity
AFA_16090	COG0237	dephospho-CoA kinase activity
AFA_16100	COG2197	response regulator
AFA_16105	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
AFA_16110	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
AFA_16120	COG0477	Major facilitator Superfamily
AFA_16150	COG4206	TonB-dependent receptor
AFA_16155	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
AFA_16170	COG1595	DNA-templated transcription, initiation
AFA_16180	COG2022	thiamine diphosphate biosynthetic process
AFA_16185	COG0351	phosphomethylpyrimidine kinase
AFA_16190	COG0775	Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively
AFA_16195	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
AFA_16200	COG1538	Outer membrane efflux protein
AFA_16205	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
AFA_16215	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
AFA_16230	COG2226	methyltransferase
AFA_16235	COG0745	RESPONSE REGULATOR receiver
AFA_16240	COG5002	protein histidine kinase activity
AFA_16250	COG2049	5-oxoprolinase (ATP-hydrolyzing) activity
AFA_16255	COG1984	allophanate hydrolase subunit 2
AFA_16260	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
AFA_16265	COG1238	metal cluster binding
AFA_16300	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
AFA_16305	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
AFA_16310	COG4988	ABC transporter
AFA_16320	COG1294	oxidase, subunit
AFA_16325	COG1271	oxidase subunit
AFA_16340	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
AFA_16355	COG1137	ATPase activity
AFA_16365	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
AFA_16370	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
AFA_16375	COG1660	Displays ATPase and GTPase activities
AFA_16385	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
AFA_16390	COG0792	nuclease activity
AFA_16395	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
AFA_16410	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
AFA_16420	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
AFA_16425	COG0793	Belongs to the peptidase S41A family
AFA_16430	COG4942	peptidase
AFA_16435	COG0588	phosphoglycerate mutase activity
AFA_16440	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
AFA_16450	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
AFA_16455	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
AFA_16460	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_16465	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
AFA_16470	COG1040	competence protein
AFA_16475	COG2226	methyltransferase
AFA_16485	COG2204	response regulator
AFA_16515	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
AFA_16520	COG3473	Maleate cis-trans isomerase
AFA_16535	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
AFA_16550	COG0463	Glycosyl transferase, family 2
AFA_16555	COG0438	transferase activity, transferring glycosyl groups
AFA_16565	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
AFA_16590	COG1209	Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis
AFA_16605	COG0355	proton-transporting ATP synthase activity, rotational mechanism
AFA_16610	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
AFA_16615	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
AFA_16620	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
AFA_16625	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
AFA_16630	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
AFA_16640	COG0356	it plays a direct role in the translocation of protons across the membrane
AFA_16650	COG1024	Enoyl-CoA hydratase
AFA_16665	COG0037	tRNA processing
AFA_16670	COG0163	prenyltransferase activity
AFA_16675	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
AFA_16680	COG2890	protein-(glutamine-N5) methyltransferase activity
AFA_16690	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
AFA_16700	COG3706	GGDEF domain
AFA_16715	COG4773	Receptor
AFA_16745	COG3180	Ammonia monooxygenase
AFA_16765	COG5002	protein histidine kinase activity
AFA_16780	COG0477	Major facilitator Superfamily
AFA_16785	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
AFA_16805	COG1116	anion transmembrane transporter activity
AFA_16830	COG0243	molybdopterin cofactor binding
AFA_16830	COG3383	formate dehydrogenase (NAD+) activity
AFA_16835	COG0243	molybdopterin cofactor binding
AFA_16835	COG3383	formate dehydrogenase (NAD+) activity
AFA_16840	COG0437	4 iron, 4 sulfur cluster binding
AFA_16845	COG2864	formate dehydrogenase
AFA_16850	COG3058	Necessary for formate dehydrogenase activity
AFA_16855	COG1921	L-seryl-tRNASec selenium transferase activity
AFA_16860	COG3276	selenocysteine insertion sequence binding
AFA_16870	COG1476	TRANSCRIPTIONal
AFA_16875	COG0235	Class ii aldolase
AFA_16885	COG3181	Tripartite tricarboxylate transporter family receptor
AFA_16905	COG0709	Synthesizes selenophosphate from selenide and ATP
AFA_16910	COG2603	Catalyzes the transfer of selenium from selenophosphate for conversion of 2-thiouridine to 2-selenouridine at the wobble position in tRNA
AFA_16915	COG3901	Regulator of nitric oxide reductase transcription
AFA_16915	COG0348	domain, Protein
AFA_16920	COG4263	nitrous-oxide reductase activity
AFA_16935	COG1277	ABC-type transport system involved in multi-copper enzyme maturation permease component
AFA_16950	COG0166	Belongs to the GPI family
AFA_16975	COG1215	transferase activity, transferring glycosyl groups
AFA_16985	COG0297	glycogen (starch) synthase activity
AFA_17010	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
AFA_17045	COG0156	8-amino-7-oxononanoate synthase activity
AFA_17055	COG2233	PERMEase
AFA_17060	COG0697	spore germination
AFA_17065	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
AFA_17070	COG0697	spore germination
AFA_17080	COG0183	Belongs to the thiolase family
AFA_17085	COG1024	Enoyl-CoA hydratase
AFA_17085	COG1250	3-hydroxyacyl-CoA dehydrogenase
AFA_17100	COG1127	ABC transporter
AFA_17105	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
AFA_17110	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
AFA_17125	COG1131	(ABC) transporter
AFA_17130	COG0842	Transport permease protein
AFA_17140	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
AFA_17145	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
AFA_17150	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
AFA_17155	COG0131	Imidazoleglycerol-phosphate dehydratase
AFA_17160	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
AFA_17165	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
AFA_17170	COG0107	imidazoleglycerol-phosphate synthase activity
AFA_17175	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
AFA_17180	COG0140	phosphoribosyl-ATP diphosphatase activity
AFA_17185	COG0537	adenosine 5'-monophosphoramidase activity
AFA_17190	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
AFA_17195	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
AFA_17205	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
AFA_17215	COG1970	mechanosensitive ion channel activity
AFA_17220	COG0723	plastoquinol--plastocyanin reductase activity
AFA_17225	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
AFA_17230	COG2857	Cytochrome c1
AFA_17235	COG0625	glutathione transferase activity
AFA_17240	COG2969	positive regulation of protein catabolic process
AFA_17245	COG4208	sulfate ABC transporter
AFA_17250	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
AFA_17255	COG4150	thiosulfate binding
AFA_17285	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
AFA_17305	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
AFA_17310	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
AFA_17315	COG3622	Belongs to the hyi family
AFA_17320	COG2084	Dehydrogenase
AFA_17325	COG0129	dihydroxy-acid dehydratase activity
AFA_17330	COG1802	Transcriptional regulator
AFA_17335	COG1522	sequence-specific DNA binding
AFA_17340	COG3483	tryptophan 2,3-dioxygenase activity
AFA_17360	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
AFA_17365	COG0656	L-ascorbic acid biosynthetic process
AFA_17375	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
AFA_17380	COG3706	GGDEF domain
AFA_17385	COG2226	methyltransferase
AFA_17395	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
AFA_17410	COG3653	N-Acyl-D-aspartate D-glutamate deacylase
AFA_17415	COG0583	DNA-binding transcription factor activity
AFA_17420	COG1028	Short-chain dehydrogenase reductase Sdr
AFA_17425	COG1335	isochorismatase
AFA_17445	COG2823	Periplasmic or secreted lipoprotein
AFA_17455	COG3284	Transcriptional regulator
AFA_17485	COG1595	DNA-templated transcription, initiation
AFA_17495	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
AFA_17500	COG1522	sequence-specific DNA binding
AFA_17515	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
AFA_17535	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
AFA_17570	COG0109	protoheme IX farnesyltransferase activity
AFA_17575	COG2207	Transcriptional regulator
AFA_17575	COG4753	response regulator
AFA_17620	COG3568	Endonuclease Exonuclease Phosphatase
AFA_17625	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)
AFA_17650	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
AFA_17660	COG1228	amidohydrolase
AFA_17680	COG2986	histidine ammonia-lyase
AFA_17685	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
AFA_17710	COG0789	Transcriptional regulator
AFA_17730	COG0625	glutathione transferase activity
AFA_17755	COG1448	Aminotransferase
AFA_17760	COG2365	Tyrosine phosphatase family
AFA_17765	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
AFA_17785	COG2423	ornithine cyclodeaminase activity
AFA_17835	COG3069	C4-dicarboxylate transmembrane transporter activity
AFA_17845	COG1802	Transcriptional regulator
AFA_17855	COG2814	Major facilitator Superfamily
AFA_17870	COG2814	Major facilitator Superfamily
AFA_17875	COG0629	single-stranded DNA binding
AFA_17880	COG2814	Major facilitator Superfamily
AFA_17890	COG0232	Belongs to the dGTPase family. Type 2 subfamily
AFA_17895	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
AFA_17900	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
AFA_17920	COG5001	Diguanylate cyclase
AFA_17920	COG5002	protein histidine kinase activity
AFA_17930	COG1333	cytochrome c biogenesis protein
AFA_17940	COG0218	Necessary for normal cell division and for the maintenance of normal septation
AFA_17950	COG4232	protein-disulfide reductase activity
AFA_17970	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
AFA_17975	COG0203	ribosomal protein L17
AFA_17980	COG0202	RNA polymerase activity
AFA_17985	COG0522	One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit
AFA_17990	COG0100	Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome
AFA_17995	COG0099	Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits
AFA_18000	COG0257	Belongs to the bacterial ribosomal protein bL36 family
AFA_18010	COG0201	protein transport
AFA_18015	COG0200	Binds to the 23S rRNA
AFA_18020	COG1841	ribosomal large subunit assembly
AFA_18025	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
AFA_18030	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
AFA_18035	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
AFA_18040	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
AFA_18045	COG0199	Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site
AFA_18050	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
AFA_18055	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
AFA_18060	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
AFA_18085	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFA_18090	COG2274	protein secretion by the type I secretion system
AFA_18100	COG1538	Outer membrane efflux protein
AFA_18125	COG3638	Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system
AFA_18135	COG0647	UMP catabolic process
AFA_18140	COG1737	Transcriptional regulator
AFA_18155	COG1960	acyl-CoA dehydrogenase activity
AFA_18160	COG0183	Belongs to the thiolase family
AFA_18170	COG2067	long-chain fatty acid transport protein
AFA_18185	COG0318	PFAM AMP-dependent synthetase and ligase
AFA_18190	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
AFA_18195	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
AFA_18200	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
AFA_18200	COG1648	precorrin-2 dehydrogenase activity
AFA_18215	COG1116	anion transmembrane transporter activity
AFA_18220	COG1960	acyl-CoA dehydrogenase activity
AFA_18235	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
AFA_18240	COG0255	Belongs to the universal ribosomal protein uL29 family
AFA_18245	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
AFA_18250	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
AFA_18255	COG0091	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
AFA_18260	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
AFA_18265	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
AFA_18270	COG0089	rRNA binding
AFA_18275	COG0088	Forms part of the polypeptide exit tunnel
AFA_18280	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
AFA_18285	COG4175	Glycine betaine
AFA_18290	COG4176	ABC-type proline glycine betaine transport system permease component
AFA_18295	COG0051	transcription antitermination factor activity, RNA binding
AFA_18300	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
AFA_18305	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
AFA_18310	COG0049	tRNA binding
AFA_18315	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
AFA_18345	COG3241	Transfers electrons from cytochrome c551 to cytochrome oxidase
AFA_18350	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
AFA_18355	COG0085	RNA polymerase activity
AFA_18360	COG0222	ribosome binding
AFA_18365	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
AFA_18370	COG0081	regulation of translation
AFA_18375	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
AFA_18395	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
AFA_18415	COG1475	DNA binding
AFA_18420	COG1192	Involved in chromosome partitioning
AFA_18430	COG0445	tRNA wobble uridine modification
AFA_18435	COG0436	Aminotransferase
AFA_18440	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
AFA_18445	COG3706	GGDEF domain
AFA_18450	COG0688	phosphatidylethanolamine metabolic process
AFA_18460	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
AFA_18505	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
AFA_18540	COG0559	Belongs to the binding-protein-dependent transport system permease family
AFA_18560	COG0596	Alpha beta hydrolase
AFA_18565	COG2309	aminopeptidase activity
AFA_18570	COG1335	isochorismatase
AFA_18595	COG0753	catalase activity
AFA_18600	COG0706	membrane insertase activity
AFA_18605	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
AFA_18610	COG0594	ribonuclease P activity
AFA_18615	COG0230	Belongs to the bacterial ribosomal protein bL34 family