locus-tag	class	description
AFE_0001	COG0592	DNA-directed DNA polymerase activity
AFE_0002	COG1195	it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP
AFE_0003	COG0187	DNA topoisomerase II activity
AFE_0004	COG0493	'glutamate synthase
AFE_0004	COG0543	2 iron, 2 sulfur cluster binding
AFE_0011	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
AFE_0013	COG0850	regulation of cytokinetic process
AFE_0014	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
AFE_0015	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
AFE_0015	COG1754	DNA topoisomerase type I activity
AFE_0016	COG2922	Belongs to the Smg family
AFE_0017	COG0758	DNA mediated transformation
AFE_0019	COG0242	peptide deformylase activity
AFE_0020	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
AFE_0021	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
AFE_0023	COG5000	phosphorelay sensor kinase activity
AFE_0024	COG2204	response regulator
AFE_0026	COG3852	Histidine kinase
AFE_0027	COG2204	response regulator
AFE_0029	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
AFE_0031	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
AFE_0032	COG0706	membrane insertase activity
AFE_0033	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
AFE_0035	COG0230	Belongs to the bacterial ribosomal protein bL34 family
AFE_0036	COG0488	(ABC) transporter
AFE_0038	COG1566	PFAM secretion protein HlyD family protein
AFE_0054	COG2095	MarC family integral membrane protein
AFE_0056	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)
AFE_0057	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
AFE_0059	COG0217	transcriptional regulatory protein
AFE_0060	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
AFE_0061	COG0632	four-way junction helicase activity
AFE_0062	COG2255	four-way junction helicase activity
AFE_0063	COG0824	Thioesterase
AFE_0067	COG0823	Involved in the tonB-independent uptake of proteins
AFE_0068	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
AFE_0069	COG0602	queuosine metabolic process
AFE_0071	COG2885	chlorophyll binding
AFE_0077	COG2226	methyltransferase
AFE_0092	COG3177	Filamentation induced by cAMP protein fic
AFE_0098	COG1252	NADH dehydrogenase
AFE_0101	COG1136	(ABC) transporter
AFE_0105	COG1914	H( )-stimulated, divalent metal cation uptake system
AFE_0106	COG2205	protein histidine kinase activity
AFE_0107	COG0745	RESPONSE REGULATOR receiver
AFE_0109	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFE_0122	COG2833	Protein of unknown function (DUF455)
AFE_0123	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
AFE_0125	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
AFE_0126	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
AFE_0127	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
AFE_0135	COG0583	DNA-binding transcription factor activity
AFE_0138	COG0859	PFAM glycosyl transferase family 9
AFE_0140	COG0277	FAD linked oxidase domain protein
AFE_0141	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
AFE_0142	COG0792	nuclease activity
AFE_0143	COG3107	peptidoglycan biosynthetic process
AFE_0152	COG2363	Small membrane protein
AFE_0154	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
AFE_0156	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
AFE_0157	COG1586	Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine
AFE_0158	COG1127	ABC transporter
AFE_0159	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
AFE_0160	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
AFE_0163	COG1131	(ABC) transporter
AFE_0164	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
AFE_0165	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)
AFE_0167	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
AFE_0170	COG0018	arginyl-trna synthetase
AFE_0172	COG0583	DNA-binding transcription factor activity
AFE_0174	COG0708	Exodeoxyribonuclease III
AFE_0176	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
AFE_0177	COG0625	glutathione transferase activity
AFE_0178	COG0708	Exodeoxyribonuclease III
AFE_0179	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
AFE_0180	COG1047	Peptidyl-prolyl cis-trans
AFE_0181	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
AFE_0182	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)
AFE_0183	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
AFE_0186	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
AFE_0187	COG0237	dephospho-CoA kinase activity
AFE_0188	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
AFE_0189	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
AFE_0191	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
AFE_0192	COG0739	heme binding
AFE_0192	COG0741	lytic transglycosylase activity
AFE_0192	COG1196	nuclear chromosome segregation
AFE_0194	COG2264	protein methyltransferase activity
AFE_0195	COG0439	Biotin carboxylase
AFE_0197	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
AFE_0200	COG0206	Essential cell division protein that forms a contractile ring structure (Z ring) at the future cell division site. The regulation of the ring assembly controls the timing and the location of cell division. One of the functions of the FtsZ ring is to recruit other cell division proteins to the septum to produce a new cell wall between the dividing cells. Binds GTP and shows GTPase activity
AFE_0202	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
AFE_0203	COG1181	Belongs to the D-alanine--D-alanine ligase family
AFE_0204	COG0812	UDP-N-acetylmuramate dehydrogenase activity
AFE_0205	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
AFE_0206	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)
AFE_0207	COG0772	Belongs to the SEDS family
AFE_0208	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
AFE_0209	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
AFE_0210	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
AFE_0211	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
AFE_0214	COG0275	rRNA processing
AFE_0215	COG2001	Belongs to the MraZ family
AFE_0220	COG1022	Amp-dependent synthetase and ligase
AFE_0221	COG0625	glutathione transferase activity
AFE_0223	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
AFE_0225	COG0653	protein targeting
AFE_0226	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
AFE_0227	COG0494	nUDIX hydrolase
AFE_0228	COG0463	Glycosyl transferase, family 2
AFE_0231	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
AFE_0237	COG1519	Transferase
AFE_0238	COG1560	Kdo2-lipid A biosynthetic process
AFE_0239	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
AFE_0240	COG1262	PFAM Formylglycine-generating sulfatase enzyme
AFE_0241	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
AFE_0242	COG1040	competence protein
AFE_0243	COG0156	8-amino-7-oxononanoate synthase activity
AFE_0244	COG2267	carboxylic ester hydrolase activity
AFE_0245	COG2226	methyltransferase
AFE_0246	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
AFE_0247	COG0501	Belongs to the peptidase M48B family
AFE_0248	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
AFE_0249	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
AFE_0250	COG0390	transport system, permease component
AFE_0252	COG0543	2 iron, 2 sulfur cluster binding
AFE_0252	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
AFE_0255	COG1309	transcriptional regulator
AFE_0256	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
AFE_0257	COG1566	PFAM secretion protein HlyD family protein
AFE_0259	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
AFE_0260	COG1872	DUF167
AFE_0270	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
AFE_0271	COG0220	tRNA (guanine-N7-)-methyltransferase activity
AFE_0272	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
AFE_0273	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
AFE_0276	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
AFE_0277	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
AFE_0281	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
AFE_0282	COG0735	belongs to the Fur family
AFE_0283	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
AFE_0284	COG0211	Belongs to the bacterial ribosomal protein bL27 family
AFE_0285	COG0261	This protein binds to 23S rRNA in the presence of protein L20
AFE_0286	COG0659	secondary active sulfate transmembrane transporter activity
AFE_0287	COG0288	reversible hydration of carbon dioxide
AFE_0288	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
AFE_0289	COG2226	methyltransferase
AFE_0292	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
AFE_0292	COG2813	Specifically methylates the guanine in position
AFE_0293	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
AFE_0295	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
AFE_0296	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
AFE_0297	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
AFE_0297	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
AFE_0300	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
AFE_0301	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
AFE_0305	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
AFE_0311	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
AFE_0315	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
AFE_0316	COG0081	regulation of translation
AFE_0317	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
AFE_0318	COG0222	ribosome binding
AFE_0320	COG0085	RNA polymerase activity
AFE_0321	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
AFE_0322	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
AFE_0323	COG0049	tRNA binding
AFE_0324	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
AFE_0325	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
AFE_0326	COG0051	transcription antitermination factor activity, RNA binding
AFE_0327	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
AFE_0328	COG0088	Forms part of the polypeptide exit tunnel
AFE_0329	COG0089	rRNA binding
AFE_0330	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
AFE_0331	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
AFE_0332	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
AFE_0334	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
AFE_0335	COG0255	Belongs to the universal ribosomal protein uL29 family
AFE_0336	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
AFE_0337	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
AFE_0338	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
AFE_0339	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
AFE_0340	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
AFE_0341	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
AFE_0342	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
AFE_0343	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
AFE_0344	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
AFE_0345	COG1841	ribosomal large subunit assembly
AFE_0346	COG0200	Binds to the 23S rRNA
AFE_0347	COG0201	protein transport
AFE_0348	COG0563	adenylate kinase activity
AFE_0349	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
AFE_0350	COG0257	Belongs to the bacterial ribosomal protein bL36 family
AFE_0351	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
AFE_0352	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
AFE_0353	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
AFE_0354	COG0202	RNA polymerase activity
AFE_0355	COG0203	ribosomal protein L17
AFE_0356	COG0756	dUTP diphosphatase activity
AFE_0357	COG0452	Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine
AFE_0358	COG2003	Belongs to the UPF0758 family
AFE_0360	COG0671	phosphoesterase, PA-phosphatase related
AFE_0366	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
AFE_0367	COG0678	peroxiredoxin activity
AFE_0367	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
AFE_0368	COG0560	Phosphoserine phosphatase
AFE_0369	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
AFE_0370	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
AFE_0371	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
AFE_0375	COG0492	ferredoxin-NADP+ reductase activity
AFE_0377	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)
AFE_0379	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
AFE_0380	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)
AFE_0382	COG1376	ErfK ybiS ycfS ynhG family protein
AFE_0389	COG0779	Required for maturation of 30S ribosomal subunits
AFE_0390	COG0195	Participates in both transcription termination and antitermination
AFE_0391	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
AFE_0392	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
AFE_0393	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
AFE_0394	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
AFE_0395	COG1185	polyribonucleotide nucleotidyltransferase activity
AFE_0396	COG0612	Peptidase, M16
AFE_0397	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
AFE_0399	COG0328	RNA-DNA hybrid ribonuclease activity
AFE_0400	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
AFE_0402	COG0346	lactoylglutathione lyase activity
AFE_0404	COG0137	argininosuccinate synthase activity
AFE_0405	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
AFE_0406	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
AFE_0407	COG0527	aspartate kinase activity
AFE_0412	COG4115	mRNA cleavage
AFE_0419	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
AFE_0421	COG1388	LysM domain
AFE_0421	COG0741	lytic transglycosylase activity
AFE_0422	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)
AFE_0424	COG0538	isocitrate dehydrogenase activity
AFE_0425	COG0045	succinate-CoA ligase (ADP-forming) activity
AFE_0427	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
AFE_0428	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
AFE_0428	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
AFE_0434	COG1850	ribulose-bisphosphate carboxylase activity
AFE_0435	COG4359	Dephosphorylates 2-hydroxy-3-keto-5-methylthiopentenyl- 1-phosphate (HK-MTPenyl-1-P) yielding 1,2-dihydroxy-3-keto-5- methylthiopentene (DHK-MTPene)
AFE_0436	COG0235	Class ii aldolase
AFE_0438	COG0242	peptide deformylase activity
AFE_0439	COG0531	amino acid
AFE_0445	COG1210	Utp--glucose-1-phosphate uridylyltransferase
AFE_0447	COG2204	response regulator
AFE_0449	COG2205	protein histidine kinase activity
AFE_0450	COG0497	DNA recombination
AFE_0451	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
AFE_0452	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
AFE_0453	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
AFE_0453	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
AFE_0454	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
AFE_0457	COG1466	dna polymerase III delta subunit
AFE_0459	COG0495	leucyl-tRNA aminoacylation
AFE_0460	COG0655	NAD(P)H dehydrogenase (quinone) activity
AFE_0461	COG2353	YceI-like domain
AFE_0462	COG2173	Catalyzes hydrolysis of the D-alanyl-D-alanine dipeptide
AFE_0463	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
AFE_0465	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
AFE_0468	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
AFE_0469	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
AFE_0472	COG0436	Aminotransferase
AFE_0474	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
AFE_0476	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
AFE_0477	COG4456	Virulence-associated protein
AFE_0480	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
AFE_0483	COG1136	(ABC) transporter
AFE_0484	COG2333	competence protein COMEC
AFE_0484	COG0658	competence protein
AFE_0485	COG0811	peptide transport
AFE_0486	COG0848	biopolymer transport protein
AFE_0489	COG1663	tetraacyldisaccharide 4'-kinase activity
AFE_0490	COG2835	tetraacyldisaccharide 4'-kinase activity
AFE_0491	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
AFE_0496	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
AFE_0502	COG2329	Antibiotic biosynthesis monooxygenase
AFE_0508	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
AFE_0509	COG4974	Belongs to the 'phage' integrase family
AFE_0518	COG1573	uracil-dna glycosylase
AFE_0519	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
AFE_0520	COG0542	response to heat
AFE_0521	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
AFE_0522	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
AFE_0523	COG0693	protein deglycase activity
AFE_0524	COG0793	Belongs to the peptidase S41A family
AFE_0526	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
AFE_0527	COG0058	SHG alpha-glucan phosphorylase activity
AFE_0529	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
AFE_0532	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
AFE_0534	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
AFE_0539	COG2046	Belongs to the sulfate adenylyltransferase family
AFE_0539	COG0529	Catalyzes the synthesis of activated sulfate
AFE_0542	COG0459	protein refolding
AFE_0543	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
AFE_0548	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
AFE_0551	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
AFE_0555	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
AFE_0556	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)
AFE_0557	COG0196	riboflavin kinase activity
AFE_0562	COG1561	YicC-like family, N-terminal region
AFE_0563	COG0194	GDP metabolic process
AFE_0564	COG1758	RNA polymerase activity
AFE_0565	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
AFE_0571	COG0628	permease
AFE_0572	COG1355	regulation of microtubule-based process
AFE_0573	COG2078	PFAM AMMECR1 domain protein
AFE_0575	COG1538	Outer membrane efflux protein
AFE_0589	COG0513	Belongs to the DEAD box helicase family
AFE_0590	COG1278	Cold shock
AFE_0591	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
AFE_0594	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
AFE_0596	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
AFE_0597	COG1702	phosphate starvation-inducible protein PhoH
AFE_0598	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
AFE_0599	COG4535	Mg2 and Co2 transporter CorC
AFE_0600	COG0312	modulator of DNA gyrase
AFE_0601	COG0815	Transfers the fatty acyl group on membrane lipoproteins
AFE_0603	COG1121	(ABC) transporter
AFE_0605	COG1108	ABC-type Mn2 Zn2 transport systems permease components
AFE_0615	COG0438	transferase activity, transferring glycosyl groups
AFE_0616	COG0438	transferase activity, transferring glycosyl groups
AFE_0617	COG1132	(ABC) transporter
AFE_0618	COG1004	Belongs to the UDP-glucose GDP-mannose dehydrogenase family
AFE_0621	COG0406	alpha-ribazole phosphatase activity
AFE_0621	COG0328	RNA-DNA hybrid ribonuclease activity
AFE_0623	COG2226	methyltransferase
AFE_0624	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
AFE_0626	COG0066	3-isopropylmalate dehydratase activity
AFE_0628	COG0259	pyridoxamine-phosphate oxidase activity
AFE_0629	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
AFE_0631	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
AFE_0632	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
AFE_0635	COG0109	protoheme IX farnesyltransferase activity
AFE_0636	COG1968	undecaprenyl-diphosphatase activity
AFE_0637	COG2814	Major facilitator Superfamily
AFE_0638	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
AFE_0640	COG0505	Belongs to the CarA family
AFE_0643	COG2022	thiamine diphosphate biosynthetic process
AFE_0645	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
AFE_0646	COG1127	ABC transporter
AFE_0647	COG0163	prenyltransferase activity
AFE_0648	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
AFE_0652	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
AFE_0659	COG0254	rRNA binding
AFE_0660	COG0281	malic enzyme
AFE_0661	COG0628	permease
AFE_0662	COG0129	dihydroxy-acid dehydratase activity
AFE_0664	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
AFE_0664	COG1246	Belongs to the acetyltransferase family. ArgA subfamily
AFE_0665	COG0271	Belongs to the BolA IbaG family
AFE_0666	COG2350	Protein conserved in bacteria
AFE_0667	COG2917	probably involved in intracellular septation
AFE_0670	COG0565	Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA
AFE_0672	COG1959	2 iron, 2 sulfur cluster binding
AFE_0673	COG1104	cysteine desulfurase activity
AFE_0674	COG0822	iron-sulfur transferase activity
AFE_0676	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
AFE_0677	COG0443	Heat shock 70 kDa protein
AFE_0680	COG0482	sulfurtransferase activity
AFE_0681	COG1752	Esterase of the alpha-beta hydrolase superfamily
AFE_0686	COG0732	type I restriction modification DNA specificity domain
AFE_0690	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
AFE_0693	COG3284	Transcriptional regulator
AFE_0696	COG3791	Glutathione-dependent formaldehyde-activating
AFE_0697	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
AFE_0698	COG0627	Serine hydrolase involved in the detoxification of formaldehyde
AFE_0699	COG0583	DNA-binding transcription factor activity
AFE_0700	COG2204	response regulator
AFE_0710	COG0694	Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins
AFE_0713	COG0298	carbon dioxide binding
AFE_0714	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
AFE_0717	COG0375	protein maturation
AFE_0722	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
AFE_0728	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
AFE_0729	COG0493	'glutamate synthase
AFE_0730	COG0069	glutamate synthase activity
AFE_0730	COG0070	glutamate synthase
AFE_0730	COG0067	glutamate synthase
AFE_0731	COG0232	Belongs to the dGTPase family. Type 2 subfamily
AFE_0732	COG1351	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 NAD(P)H and FADH(2) as the reductant
AFE_0733	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
AFE_0734	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
AFE_0741	COG0590	tRNA wobble adenosine to inosine editing
AFE_0742	COG0432	Pfam Uncharacterised protein family UPF0047
AFE_0744	COG1193	negative regulation of DNA recombination
AFE_0745	COG0028	Belongs to the TPP enzyme family
AFE_0747	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
AFE_0748	COG0688	phosphatidylethanolamine metabolic process
AFE_0750	COG1183	phosphatidylcholine synthase activity
AFE_0751	COG0589	response to stress
AFE_0752	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
AFE_0753	COG1196	nuclear chromosome segregation
AFE_0757	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
AFE_0764	COG0730	response to heat
AFE_0768	COG0811	peptide transport
AFE_0772	COG0402	S-adenosylhomocysteine deaminase activity
AFE_0773	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
AFE_0780	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
AFE_0780	COG3608	succinylglutamate desuccinylase aspartoacylase
AFE_0784	COG0746	molybdenum cofactor guanylyltransferase activity
AFE_0791	COG0475	glutathione-regulated potassium exporter activity
AFE_0793	COG1028	Short-chain dehydrogenase reductase Sdr
AFE_0809	COG1529	Aldehyde oxidase and xanthine dehydrogenase
AFE_0809	COG2080	2 iron, 2 sulfur cluster binding
AFE_0813	COG2814	Major facilitator Superfamily
AFE_0814	COG0038	chloride channel
AFE_0817	COG0583	DNA-binding transcription factor activity
AFE_0833	COG4974	Belongs to the 'phage' integrase family
AFE_0834	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
AFE_0837	COG3267	Type II secretory pathway component ExeA
AFE_0837	COG3409	Peptidoglycan-binding domain 1 protein
AFE_0840	COG1196	nuclear chromosome segregation
AFE_0841	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
AFE_0846	COG1064	alcohol dehydrogenase
AFE_0847	COG0504	CTP synthase activity
AFE_0848	COG2877	3-deoxy-8-phosphooctulonate synthase activity
AFE_0849	COG0148	phosphopyruvate hydratase activity
AFE_0850	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
AFE_0851	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
AFE_0853	COG0322	excinuclease ABC activity
AFE_0858	COG3189	MarR family transcriptional regulator
AFE_0861	COG1017	nitric oxide dioxygenase activity
AFE_0861	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
AFE_0862	COG1566	PFAM secretion protein HlyD family protein
AFE_0863	COG1538	Outer membrane efflux protein
AFE_0864	COG2814	Major facilitator Superfamily
AFE_0866	COG0583	DNA-binding transcription factor activity
AFE_0869	COG2161	toxin-antitoxin pair type II binding
AFE_0872	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
AFE_0878	COG1247	-acetyltransferase
AFE_0888	COG0393	Putative heavy-metal-binding
AFE_0890	COG2026	Addiction module toxin, RelE StbE family
AFE_0892	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
AFE_0893	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
AFE_0895	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
AFE_0896	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
AFE_0898	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
AFE_0899	COG2876	3-deoxy-7-phosphoheptulonate synthase activity
AFE_0900	COG0287	Prephenate dehydrogenase
AFE_0901	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
AFE_0902	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
AFE_0905	COG0776	regulation of translation
AFE_0906	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
AFE_0907	COG0284	orotidine-5'-phosphate decarboxylase activity
AFE_0908	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
AFE_0909	COG0544	peptidyl-prolyl cis-trans isomerase activity
AFE_0911	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
AFE_0912	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
AFE_0918	COG0671	phosphoesterase, PA-phosphatase related
AFE_0923	COG2915	High frequency lysogenization protein hflD homolog
AFE_0924	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
AFE_0925	COG0024	Methionine aminopeptidase
AFE_0926	COG1489	DNA binding
AFE_0927	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)
AFE_0929	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
AFE_0932	COG0468	Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage
AFE_0933	COG2137	regulation of response to DNA damage stimulus
AFE_0941	COG1196	nuclear chromosome segregation
AFE_0941	COG0741	lytic transglycosylase activity
AFE_0941	COG0739	heme binding
AFE_0942	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
AFE_0945	COG0488	(ABC) transporter
AFE_0948	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
AFE_0954	COG1294	oxidase, subunit
AFE_0958	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
AFE_0962	COG3416	Protein conserved in bacteria
AFE_0962	COG2943	transferase activity, transferring hexosyl groups
AFE_0964	COG2363	Small membrane protein
AFE_0973	COG0616	signal peptide processing
AFE_0975	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
AFE_0976	COG0314	molybdopterin synthase activity
AFE_0977	COG1666	GTP binding
AFE_0979	COG0404	The glycine cleavage system catalyzes the degradation of glycine
AFE_0980	COG0509	glycine decarboxylation via glycine cleavage system
AFE_0981	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
AFE_0982	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
AFE_0983	COG1132	(ABC) transporter
AFE_0984	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
AFE_0985	COG0450	alkyl hydroperoxide reductase
AFE_0987	COG0613	PHP domain protein
AFE_0988	COG0628	permease
AFE_0992	COG0084	hydrolase, TatD family'
AFE_0993	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
AFE_0993	COG0321	lipoyl(octanoyl) transferase activity
AFE_0995	COG0582	viral genome integration into host DNA
AFE_0998	COG2932	Transcriptional regulator
AFE_1007	COG1196	nuclear chromosome segregation
AFE_1007	COG0741	lytic transglycosylase activity
AFE_1007	COG0739	heme binding
AFE_1013	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
AFE_1016	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
AFE_1024	COG1994	Peptidase M50
AFE_1047	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
AFE_1057	COG0457	Tetratricopeptide repeat
AFE_1058	COG0675	Transposase, IS605 OrfB family
AFE_1073	COG3617	BRO family, N-terminal domain
AFE_1087	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
AFE_1091	COG0681	Belongs to the peptidase S26 family
AFE_1098	COG2336	PFAM SpoVT AbrB
AFE_1114	COG0501	Belongs to the peptidase M48B family
AFE_1130	COG1674	ftsk spoiiie
AFE_1137	COG0210	DNA helicase
AFE_1145	COG4974	Belongs to the 'phage' integrase family
AFE_1199	COG0328	RNA-DNA hybrid ribonuclease activity
AFE_1211	COG0457	Tetratricopeptide repeat
AFE_1215	COG0675	Transposase, IS605 OrfB family
AFE_1260	COG0629	single-stranded DNA binding
AFE_1295	COG2204	response regulator
AFE_1296	COG0583	DNA-binding transcription factor activity
AFE_1326	COG3561	AntA/AntB antirepressor
AFE_1338	COG0671	phosphoesterase, PA-phosphatase related
AFE_1342	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
AFE_1346	COG1215	transferase activity, transferring glycosyl groups
AFE_1349	COG0438	transferase activity, transferring glycosyl groups
AFE_1351	COG0438	transferase activity, transferring glycosyl groups
AFE_1353	COG0367	asparagine synthase
AFE_1354	COG0297	glycogen (starch) synthase activity
AFE_1355	COG0438	transferase activity, transferring glycosyl groups
AFE_1357	COG0438	transferase activity, transferring glycosyl groups
AFE_1366	COG0836	Belongs to the mannose-6-phosphate isomerase type 2 family
AFE_1366	COG0662	Cupin 2, conserved barrel domain protein
AFE_1371	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
AFE_1373	COG1484	DNA-dependent DNA replication
AFE_1376	COG3415	Transposase
AFE_1378	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
AFE_1388	COG4988	ABC transporter
AFE_1390	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
AFE_1391	COG0354	folic acid binding
AFE_1392	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
AFE_1396	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
AFE_1397	COG0481	GTPase activity
AFE_1398	COG0681	Belongs to the peptidase S26 family
AFE_1400	COG0571	ribonuclease III activity
AFE_1401	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
AFE_1402	COG1381	Involved in DNA repair and RecF pathway recombination
AFE_1403	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
AFE_1404	COG0736	holo-[acyl-carrier-protein] synthase activity
AFE_1406	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
AFE_1406	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
AFE_1407	COG0037	tRNA processing
AFE_1408	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
AFE_1427	COG0438	transferase activity, transferring glycosyl groups
AFE_1430	COG1230	cation diffusion facilitator family transporter
AFE_1433	COG0513	Belongs to the DEAD box helicase family
AFE_1436	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
AFE_1437	COG0573	inorganic phosphate transmembrane transporter activity
AFE_1438	COG0581	inorganic phosphate transmembrane transporter activity
AFE_1439	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
AFE_1440	COG0704	Plays a role in the regulation of phosphate uptake
AFE_1444	COG0052	Belongs to the universal ribosomal protein uS2 family
AFE_1445	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
AFE_1446	COG0528	UMP kinase activity
AFE_1448	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
AFE_1449	COG0575	Belongs to the CDS family
AFE_1450	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
AFE_1454	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
AFE_1455	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
AFE_1456	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
AFE_1457	COG0673	inositol 2-dehydrogenase activity
AFE_1459	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
AFE_1460	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
AFE_1462	COG0825	malonyl-CoA metabolic process
AFE_1464	COG0037	tRNA processing
AFE_1465	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
AFE_1466	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
AFE_1468	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
AFE_1469	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
AFE_1471	COG1166	arginine decarboxylase activity
AFE_1479	COG2025	fatty acid beta-oxidation using acyl-CoA dehydrogenase
AFE_1485	COG0811	peptide transport
AFE_1491	COG1120	ATPase activity
AFE_1493	COG0725	ABC transporter, periplasmic molybdate-binding protein
AFE_1495	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
AFE_1498	COG0725	ABC transporter, periplasmic molybdate-binding protein
AFE_1502	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
AFE_1513	COG5420	small protein containing a coiled-coil domain
AFE_1516	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
AFE_1517	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
AFE_1520	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
AFE_1521	COG2710	Component of the dark-operative protochlorophyllide reductase (DPOR) that uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This reaction is light-independent. The NB-protein
AFE_1522	COG1348	The key enzymatic reactions in nitrogen fixation are catalyzed by the nitrogenase complex which has 2 components the iron protein and the molybdenum-iron protein
AFE_1530	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
AFE_1531	COG0316	Belongs to the HesB IscA family
AFE_1537	COG1104	cysteine desulfurase activity
AFE_1538	COG5554	nitrogen fixation
AFE_1540	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
AFE_1541	COG0633	Ferredoxin
AFE_1546	COG1012	belongs to the aldehyde dehydrogenase family
AFE_1550	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
AFE_1551	COG0438	transferase activity, transferring glycosyl groups
AFE_1552	COG0438	transferase activity, transferring glycosyl groups
AFE_1553	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
AFE_1556	COG4974	Belongs to the 'phage' integrase family
AFE_1564	COG4197	protein conserved in bacteria, prophage-related
AFE_1566	COG1484	DNA-dependent DNA replication
AFE_1569	COG0629	single-stranded DNA binding
AFE_1577	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
AFE_1583	COG0776	regulation of translation
AFE_1584	COG0776	regulation of translation
AFE_1589	COG3077	Addiction module antitoxin, RelB DinJ family
AFE_1603	COG0842	Transport permease protein
AFE_1604	COG0842	Transport permease protein
AFE_1605	COG1131	(ABC) transporter
AFE_1606	COG1131	(ABC) transporter
AFE_1613	COG1569	PIN domain
AFE_1614	COG3311	Transcriptional regulator
AFE_1631	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
AFE_1634	COG4962	Type ii secretion system protein e
AFE_1638	COG3451	type IV secretory pathway VirB4
AFE_1646	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
AFE_1651	COG2084	Dehydrogenase
AFE_1652	COG0243	molybdopterin cofactor binding
AFE_1654	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
AFE_1656	COG0543	2 iron, 2 sulfur cluster binding
AFE_1656	COG0633	Ferredoxin
AFE_1657	COG1151	hydroxylamine reductase activity
AFE_1661	COG3002	Belongs to the UPF0753 family
AFE_1662	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
AFE_1663	COG0247	lactate metabolic process
AFE_1664	COG0277	FAD linked oxidase domain protein
AFE_1665	COG0277	FAD linked oxidase domain protein
AFE_1672	COG0418	dihydroorotase activity
AFE_1673	COG0129	dihydroxy-acid dehydratase activity
AFE_1674	COG0009	L-threonylcarbamoyladenylate synthase
AFE_1675	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
AFE_1676	COG0191	fructose-bisphosphate aldolase activity
AFE_1680	COG1192	Involved in chromosome partitioning
AFE_1691	COG1850	ribulose-bisphosphate carboxylase activity
AFE_1694	COG3701	Conjugal transfer protein
AFE_1706	COG4372	Transposase
AFE_1707	COG5001	Diguanylate cyclase
AFE_1707	COG3300	MHYT domain
AFE_1719	COG1475	DNA binding
AFE_1720	COG1192	Involved in chromosome partitioning
AFE_1723	COG0667	Aldo Keto reductase
AFE_1734	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
AFE_1738	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
AFE_1740	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
AFE_1741	COG3284	Transcriptional regulator
AFE_1742	COG1012	belongs to the aldehyde dehydrogenase family
AFE_1751	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
AFE_1753	COG3158	transport of potassium into the cell
AFE_1762	COG1666	GTP binding
AFE_1763	COG0438	transferase activity, transferring glycosyl groups
AFE_1764	COG0670	Belongs to the BI1 family
AFE_1770	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
AFE_1771	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
AFE_1772	COG1428	Deoxynucleoside kinase
AFE_1774	COG0617	tRNA 3'-terminal CCA addition
AFE_1776	COG0463	Glycosyl transferase, family 2
AFE_1778	COG0519	Catalyzes the synthesis of GMP from XMP
AFE_1778	COG0518	GMP synthase (glutamine-hydrolyzing) activity
AFE_1779	COG4691	Plasmid stability protein
AFE_1780	COG1487	ribonuclease activity
AFE_1782	COG0531	amino acid
AFE_1783	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
AFE_1784	COG3096	Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division
AFE_1784	COG3264	Mechanosensitive ion channel
AFE_1787	COG0009	L-threonylcarbamoyladenylate synthase
AFE_1788	COG1994	Peptidase M50
AFE_1789	COG0180	Tryptophanyl-tRNA synthetase
AFE_1790	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
AFE_1791	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
AFE_1792	COG0446	pyridine nucleotide-disulphide oxidoreductase
AFE_1793	COG1187	pseudouridine synthase activity
AFE_1797	COG2814	Major facilitator Superfamily
AFE_1800	COG0148	phosphopyruvate hydratase activity
AFE_1807	COG1105	Belongs to the carbohydrate kinase PfkB family
AFE_1808	COG0280	phosphate acetyltransferase
AFE_1809	COG0477	Major facilitator Superfamily
AFE_1810	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
AFE_1811	COG0508	dehydrogenase complex catalyzes the overall conversion of
AFE_1812	COG0022	dehydrogenase e1 component
AFE_1813	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
AFE_1815	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
AFE_1816	COG0574	Belongs to the PEP-utilizing enzyme family
AFE_1816	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)
AFE_1819	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
AFE_1820	COG2171	N-acyltransferase activity
AFE_1825	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
AFE_1826	COG0402	S-adenosylhomocysteine deaminase activity
AFE_1828	COG0791	NLP P60 protein
AFE_1828	COG1388	LysM domain
AFE_1833	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
AFE_1848	COG0122	3-methyladenine DNA glycosylase 8-oxoguanine DNA glycosylase
AFE_1851	COG1216	Glycosyl transferase, family 2
AFE_1856	COG2303	Involved in the biosynthesis of the osmoprotectant glycine betaine. Catalyzes the oxidation of choline to betaine aldehyde and betaine aldehyde to glycine betaine at the same rate
AFE_1857	COG1028	Short-chain dehydrogenase reductase Sdr
AFE_1861	COG2154	pterin-4-alpha-carbinolamine dehydratase
AFE_1868	COG1974	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair
AFE_1871	COG0587	DNA-directed DNA polymerase activity
AFE_1873	COG0308	aminopeptidase N
AFE_1876	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
AFE_1877	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
AFE_1878	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFE_1879	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFE_1882	COG0424	maF-like protein
AFE_1883	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
AFE_1884	COG1923	regulation of RNA biosynthetic process
AFE_1885	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
AFE_1886	COG0330	HflC and HflK could
AFE_1887	COG0330	HflC and HflK could
AFE_1888	COG3705	Required for the first step of histidine biosynthesis. May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
AFE_1893	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
AFE_1894	COG1058	Belongs to the CinA family
AFE_1894	COG1546	Belongs to the CinA family
AFE_1896	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
AFE_1897	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
AFE_1900	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
AFE_1901	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
AFE_1904	COG0333	Belongs to the bacterial ribosomal protein bL32 family
AFE_1905	COG0416	fatty acid biosynthetic process
AFE_1906	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
AFE_1907	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
AFE_1909	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
AFE_1910	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
AFE_1913	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
AFE_1920	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
AFE_1921	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
AFE_1922	COG0004	ammonium transporteR
AFE_1923	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
AFE_1923	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
AFE_1924	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
AFE_1926	COG0802	atpase or kinase
AFE_1927	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
AFE_1928	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)
AFE_1929	COG0105	UTP biosynthetic process
AFE_1930	COG0820	rRNA (adenine-C2-)-methyltransferase activity
AFE_1933	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
AFE_1934	COG0124	histidyl-tRNA synthetase
AFE_1937	COG1160	GTP binding
AFE_1945	COG0730	response to heat
AFE_1947	COG3696	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFE_1951	COG1881	PFAM PEBP family protein
AFE_1953	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
AFE_1958	COG0729	surface antigen
AFE_1962	COG4654	Cytochrome c, class I
AFE_1967	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
AFE_1969	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
AFE_1972	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
AFE_1973	COG1469	GTP cyclohydrolase I activity
AFE_1974	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)
AFE_1975	COG0142	geranyltranstransferase activity
AFE_1977	COG2223	nitrite transmembrane transporter activity
AFE_1979	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
AFE_1980	COG1570	exodeoxyribonuclease VII activity
AFE_1981	COG2010	Cytochrome c
AFE_1981	COG4993	Dehydrogenase
AFE_1986	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
AFE_1987	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
AFE_1988	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
AFE_1989	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)
AFE_1993	COG0583	DNA-binding transcription factor activity
AFE_1994	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
AFE_1997	COG2197	response regulator
AFE_1999	COG3916	Acyl-homoserine-lactone synthase
AFE_2014	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
AFE_2015	COG0456	acetyltransferase
AFE_2021	COG2217	Heavy metal translocating P-type atpase
AFE_2024	COG1023	phosphogluconate dehydrogenase (decarboxylating) activity
AFE_2025	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
AFE_2026	COG0640	Transcriptional regulator
AFE_2027	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
AFE_2029	COG0187	DNA topoisomerase II activity
AFE_2031	COG0642	Histidine kinase
AFE_2032	COG0745	RESPONSE REGULATOR receiver
AFE_2053	COG3957	D-xylulose 5-phosphate D-fructose 6-phosphate phosphoketolase
AFE_2056	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
AFE_2057	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
AFE_2058	COG1862	Preprotein translocase
AFE_2059	COG0343	queuine tRNA-ribosyltransferase activity
AFE_2060	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
AFE_2061	COG1253	flavin adenine dinucleotide binding
AFE_2064	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
AFE_2066	COG0285	dihydrofolate synthase activity
AFE_2067	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
AFE_2068	COG0159	tryptophan synthase activity
AFE_2069	COG0133	tryptophan synthase activity
AFE_2070	COG0135	phosphoribosylanthranilate isomerase activity
AFE_2071	COG0101	tRNA pseudouridine synthase activity
AFE_2074	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
AFE_2076	COG0746	molybdenum cofactor guanylyltransferase activity
AFE_2077	COG1763	Mo-molybdopterin cofactor biosynthetic process
AFE_2078	COG0303	'Molybdopterin
AFE_2080	COG0616	signal peptide processing
AFE_2083	COG0438	transferase activity, transferring glycosyl groups
AFE_2090	COG0501	Belongs to the peptidase M48B family
AFE_2091	COG0477	Major facilitator Superfamily
AFE_2103	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFE_2104	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFE_2110	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)
AFE_2111	COG0154	amidase activity
AFE_2112	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)
AFE_2119	COG3394	polysaccharide catabolic process
AFE_2122	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
AFE_2123	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
AFE_2124	COG1657	PFAM Prenyltransferase squalene oxidase
AFE_2125	COG1562	ergosterol biosynthetic process
AFE_2126	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
AFE_2127	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
AFE_2131	COG1012	belongs to the aldehyde dehydrogenase family
AFE_2132	COG0442	prolyl-tRNA aminoacylation
AFE_2136	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
AFE_2139	COG1692	metallophosphoesterase
AFE_2140	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
AFE_2144	COG0768	penicillin binding
AFE_2145	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
AFE_2146	COG0193	aminoacyl-tRNA hydrolase activity
AFE_2147	COG0012	GTP binding
AFE_2148	COG1396	sequence-specific DNA binding
AFE_2149	COG0651	ATP synthesis coupled electron transport
AFE_2150	COG0650	Formate hydrogenlyase subunit 4
AFE_2152	COG0651	ATP synthesis coupled electron transport
AFE_2153	COG3261	NADH dehydrogenase
AFE_2153	COG3262	NADH dehydrogenase (ubiquinone), 30 kDa subunit
AFE_2154	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
AFE_2155	COG1850	ribulose-bisphosphate carboxylase activity
AFE_2159	COG2824	Alkylphosphonate utilization operon protein PhnA
AFE_2160	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
AFE_2170	COG0726	polysaccharide deacetylase
AFE_2170	COG1649	PFAM Uncharacterised BCR, COG1649
AFE_2172	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
AFE_2173	COG0494	nUDIX hydrolase
AFE_2175	COG1187	pseudouridine synthase activity
AFE_2176	COG2957	Belongs to the agmatine deiminase family
AFE_2177	COG0243	molybdopterin cofactor binding
AFE_2183	COG0589	response to stress
AFE_2184	COG2814	Major facilitator Superfamily
AFE_2187	COG0210	DNA helicase
AFE_2188	COG0268	Binds directly to 16S ribosomal RNA
AFE_2189	COG3842	ATPase activity
AFE_2193	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
AFE_2194	COG0514	ATP-dependent DNA helicase (RecQ)
AFE_2195	COG1965	Belongs to the frataxin family
AFE_2200	COG0795	lipopolysaccharide-transporting ATPase activity
AFE_2201	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
AFE_2204	COG0525	valine-tRNA ligase activity
AFE_2205	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
AFE_2210	COG0412	Dienelactone hydrolase
AFE_2211	COG1902	pentaerythritol trinitrate reductase activity
AFE_2214	COG3152	Membrane
AFE_2220	COG1530	ribonuclease E activity
AFE_2221	COG0215	cysteine-tRNA ligase activity
AFE_2222	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)
AFE_2225	COG1028	Short-chain dehydrogenase reductase Sdr
AFE_2228	COG0745	RESPONSE REGULATOR receiver
AFE_2229	COG2205	protein histidine kinase activity
AFE_2232	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
AFE_2233	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
AFE_2234	COG2156	Part of the high-affinity ATP-driven potassium transport (or Kdp) system, which catalyzes the hydrolysis of ATP coupled with the electrogenic transport of potassium into the cytoplasm. This subunit acts as a catalytic chaperone that increases the ATP- binding affinity of the ATP-hydrolyzing subunit KdpB by the formation of a transient KdpB KdpC ATP ternary complex
AFE_2238	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
AFE_2254	COG4953	penicillin-binding protein 1C
AFE_2260	COG0138	bifunctional purine biosynthesis protein purh
AFE_2261	COG0151	Belongs to the GarS family
AFE_2262	COG0009	L-threonylcarbamoyladenylate synthase
AFE_2263	COG0408	coproporphyrinogen oxidase activity
AFE_2264	COG0167	dihydroorotate dehydrogenase activity
AFE_2270	COG0811	peptide transport
AFE_2273	COG0811	peptide transport
AFE_2277	COG0477	Major facilitator Superfamily
AFE_2278	COG3624	Phosphonate C-P lyase system protein PhnG
AFE_2279	COG3625	alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase activity
AFE_2280	COG3626	phosphonate metabolism
AFE_2281	COG3627	carbon phosphorus lyase activity
AFE_2282	COG4107	phosphonate C-P lyase system protein PhnK
AFE_2283	COG4778	phosphonate C-P lyase system protein PhnL
AFE_2284	COG3454	Phosphonate metabolism
AFE_2287	COG2188	Transcriptional regulator
AFE_2297	COG3511	phospholipase C
AFE_2299	COG0811	peptide transport
AFE_2302	COG4774	siderophore transport
AFE_2312	COG2814	Major facilitator Superfamily
AFE_2314	COG2062	phosphohistidine phosphatase, SixA
AFE_2318	COG2205	protein histidine kinase activity
AFE_2319	COG0745	RESPONSE REGULATOR receiver
AFE_2320	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
AFE_2321	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
AFE_2324	COG0033	Phosphoglucomutase
AFE_2328	COG3038	cytochrome b561
AFE_2332	COG0583	DNA-binding transcription factor activity
AFE_2333	COG2814	Major facilitator Superfamily
AFE_2338	COG1193	negative regulation of DNA recombination
AFE_2340	COG0828	Belongs to the bacterial ribosomal protein bS21 family
AFE_2341	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
AFE_2343	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
AFE_2346	COG0635	Involved in the biosynthesis of porphyrin-containing compound
AFE_2350	COG1686	Belongs to the peptidase S11 family
AFE_2355	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
AFE_2356	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
AFE_2358	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
AFE_2360	COG1272	protein, Hemolysin III
AFE_2361	COG0860	N-Acetylmuramoyl-L-alanine amidase
AFE_2363	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
AFE_2364	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
AFE_2366	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFE_2367	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFE_2369	COG0640	Transcriptional regulator
AFE_2381	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
AFE_2383	COG0043	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity
AFE_2386	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
AFE_2388	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
AFE_2389	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
AFE_2398	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
AFE_2399	COG4974	Belongs to the 'phage' integrase family
AFE_2410	COG0454	-acetyltransferase
AFE_2411	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
AFE_2420	COG1230	cation diffusion facilitator family transporter
AFE_2422	COG2226	methyltransferase
AFE_2431	COG3696	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFE_2443	COG3385	transposase activity
AFE_2448	COG2217	Heavy metal translocating P-type atpase
AFE_2450	COG4654	Cytochrome c, class I
AFE_2457	COG0531	amino acid
AFE_2462	COG0347	Belongs to the P(II) protein family
AFE_2464	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
AFE_2466	COG0569	domain protein
AFE_2466	COG0189	ligase activity
AFE_2467	COG0456	acetyltransferase
AFE_2470	COG4372	Transposase
AFE_2473	COG2156	Part of the high-affinity ATP-driven potassium transport (or Kdp) system, which catalyzes the hydrolysis of ATP coupled with the electrogenic transport of potassium into the cytoplasm. This subunit acts as a catalytic chaperone that increases the ATP- binding affinity of the ATP-hydrolyzing subunit KdpB by the formation of a transient KdpB KdpC ATP ternary complex
AFE_2474	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
AFE_2475	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
AFE_2477	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
AFE_2509	COG0789	Transcriptional regulator
AFE_2517	COG1199	ATP-dependent helicase activity
AFE_2520	COG0791	NLP P60 protein
AFE_2524	COG0370	Transporter of a GTP-driven Fe(2 ) uptake system
AFE_2527	COG0586	Pfam SNARE associated Golgi protein
AFE_2528	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
AFE_2534	COG0123	including yeast histone deacetylase and acetoin utilization protein
AFE_2544	COG0644	oxidoreductase
AFE_2545	COG0095	Lipoate-protein ligase
AFE_2547	COG0509	glycine decarboxylation via glycine cleavage system
AFE_2549	COG0509	glycine decarboxylation via glycine cleavage system
AFE_2550	COG2048	Heterodisulfide reductase, subunit B
AFE_2556	COG2210	Belongs to the sulfur carrier protein TusA family
AFE_2557	COG0425	Belongs to the sulfur carrier protein TusA family
AFE_2558	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
AFE_2559	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
AFE_2561	COG0315	cyclic pyranopterin monophosphate synthase activity
AFE_2562	COG1077	Cell shape determining protein MreB Mrl
AFE_2563	COG1792	Involved in formation and maintenance of cell shape
AFE_2565	COG0768	penicillin binding
AFE_2566	COG0772	Belongs to the SEDS family
AFE_2567	COG1686	Belongs to the peptidase S11 family
AFE_2569	COG0321	lipoyl(octanoyl) transferase activity
AFE_2570	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
AFE_2581	COG0751	glycine-tRNA ligase activity
AFE_2582	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
AFE_2583	COG0189	ligase activity
AFE_2588	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)
AFE_2594	COG0625	glutathione transferase activity
AFE_2595	COG1733	regulation of RNA biosynthetic process
AFE_2596	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)
AFE_2604	COG1131	(ABC) transporter
AFE_2608	COG0776	regulation of translation
AFE_2609	COG0072	phenylalanine-tRNA ligase activity
AFE_2609	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
AFE_2610	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
AFE_2611	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
AFE_2612	COG0291	Belongs to the bacterial ribosomal protein bL35 family
AFE_2613	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
AFE_2614	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)
AFE_2617	COG1007	ATP synthesis coupled electron transport
AFE_2620	COG0713	ATP synthesis coupled electron transport
AFE_2622	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
AFE_2623	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
AFE_2624	COG1034	ATP synthesis coupled electron transport
AFE_2626	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
AFE_2627	COG0649	NAD binding
AFE_2628	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
AFE_2629	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
AFE_2630	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
AFE_2632	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
AFE_2633	COG0149	triose-phosphate isomerase activity
AFE_2634	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
AFE_2635	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
AFE_2636	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
AFE_2637	COG0312	modulator of DNA gyrase
AFE_2638	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
AFE_2638	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
AFE_2639	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
AFE_2642	COG0477	Major facilitator Superfamily
AFE_2651	COG1276	copper resistance
AFE_2651	COG2372	response to copper ion
AFE_2654	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
AFE_2660	COG0717	Belongs to the dCTP deaminase family
AFE_2661	COG0489	protein tyrosine kinase activity
AFE_2663	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
AFE_2664	COG0484	heat shock protein binding
AFE_2665	COG0443	Heat shock 70 kDa protein
AFE_2666	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
AFE_2667	COG1420	regulation of RNA biosynthetic process
AFE_2669	COG0267	Belongs to the bacterial ribosomal protein bL33 family
AFE_2670	COG0227	Belongs to the bacterial ribosomal protein bL28 family
AFE_2671	COG2876	3-deoxy-7-phosphoheptulonate synthase activity
AFE_2672	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
AFE_2672	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
AFE_2673	COG0114	fumarate hydratase activity
AFE_2678	COG0297	glycogen (starch) synthase activity
AFE_2679	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
AFE_2682	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
AFE_2692	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFE_2696	COG2204	response regulator
AFE_2704	COG4964	Belongs to the GSP D family
AFE_2716	COG0457	Tetratricopeptide repeat
AFE_2728	COG1028	Short-chain dehydrogenase reductase Sdr
AFE_2729	COG0723	plastoquinol--plastocyanin reductase activity
AFE_2730	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
AFE_2731	COG2857	Cytochrome c1
AFE_2736	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
AFE_2737	COG1534	Rna-binding protein
AFE_2738	COG2967	ApaG domain
AFE_2739	COG2226	methyltransferase
AFE_2743	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
AFE_2746	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
AFE_2748	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
AFE_2751	COG2177	Part of the ABC transporter FtsEX involved in
AFE_2752	COG2884	Cell division ATP-binding protein ftsE
AFE_2753	COG0552	protein localization to endoplasmic reticulum
AFE_2754	COG0742	ribosomal rna small subunit methyltransferase
AFE_2755	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
AFE_2756	COG0699	ATPase. Has a role at an early stage in the morphogenesis of the spore coat
AFE_2757	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
AFE_2758	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
AFE_2759	COG2890	protein-(glutamine-N5) methyltransferase activity
AFE_2760	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
AFE_2761	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
AFE_2763	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
AFE_2764	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
AFE_2766	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)
AFE_2773	COG0625	glutathione transferase activity
AFE_2788	COG0393	Putative heavy-metal-binding
AFE_2790	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
AFE_2791	COG0732	type I restriction modification DNA specificity domain
AFE_2793	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
AFE_2798	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
AFE_2815	COG0006	proline dipeptidase activity
AFE_2818	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
AFE_2819	COG0305	Participates in initiation and elongation during chromosome replication
AFE_2820	COG0359	binds to the 23S rRNA
AFE_2824	COG0360	Binds together with S18 to 16S ribosomal RNA
AFE_2825	COG1472	Belongs to the glycosyl hydrolase 3 family
AFE_2826	COG0531	amino acid
AFE_2828	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
AFE_2833	COG0363	glucosamine-6-phosphate deaminase activity
AFE_2836	COG0296	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position
AFE_2838	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
AFE_2840	COG1449	Belongs to the glycosyl hydrolase 57 family
AFE_2841	COG1940	carbohydrate kinase activity
AFE_2842	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
AFE_2843	COG2733	membrane
AFE_2845	COG0629	single-stranded DNA binding
AFE_2848	COG3118	belongs to the thioredoxin family
AFE_2849	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
AFE_2852	COG0335	large ribosomal subunit rRNA binding
AFE_2853	COG0336	Belongs to the RNA methyltransferase TrmD family
AFE_2854	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
AFE_2855	COG0228	four-way junction DNA binding
AFE_2856	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
AFE_2857	COG0431	NADPH-dependent FMN reductase
AFE_2860	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
AFE_2862	COG1131	(ABC) transporter
AFE_2863	COG0842	Transport permease protein
AFE_2864	COG0842	Transport permease protein
AFE_2869	COG0509	glycine decarboxylation via glycine cleavage system
AFE_2875	COG0583	DNA-binding transcription factor activity
AFE_2876	COG2210	Belongs to the sulfur carrier protein TusA family
AFE_2879	COG0631	protein serine/threonine phosphatase activity
AFE_2880	COG4245	von Willebrand factor, type A
AFE_2882	COG1573	uracil-dna glycosylase
AFE_2886	COG2336	PFAM SpoVT AbrB
AFE_2889	COG2336	PFAM SpoVT AbrB
AFE_2899	COG0142	geranyltranstransferase activity
AFE_2902	COG3852	Histidine kinase
AFE_2905	COG2308	Evidence 4 Homologs of previously reported genes of
AFE_2910	COG2766	serine protein kinase
AFE_2911	COG0004	ammonium transporteR
AFE_2912	COG2718	Belongs to the UPF0229 family
AFE_2913	COG2719	SpoVR family
AFE_2915	COG0347	Belongs to the P(II) protein family
AFE_2916	COG0004	ammonium transporteR
AFE_2917	COG0519	Catalyzes the synthesis of GMP from XMP
AFE_2917	COG0518	GMP synthase (glutamine-hydrolyzing) activity
AFE_2921	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
AFE_2922	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
AFE_2923	COG1686	Belongs to the peptidase S11 family
AFE_2924	COG0166	Belongs to the GPI family
AFE_2926	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
AFE_2929	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
AFE_2931	COG1330	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit recognizes the wild- type Chi sequence, and when added to isolated RecB increases its ATP-dependent helicase processivity
AFE_2932	COG1074	ATP-dependent DNA helicase activity
AFE_2933	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
AFE_2945	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
AFE_2946	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
AFE_2948	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
AFE_2950	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
AFE_2953	COG0424	maF-like protein
AFE_2954	COG1530	ribonuclease E activity
AFE_2955	COG2204	response regulator
AFE_2957	COG2205	protein histidine kinase activity
AFE_2959	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
AFE_2967	COG0438	transferase activity, transferring glycosyl groups
AFE_2971	COG0529	Catalyzes the synthesis of activated sulfate
AFE_2971	COG2895	sulfate adenylyltransferase (ATP) activity
AFE_2985	COG1132	(ABC) transporter
AFE_2986	COG2153	protein acetylation
AFE_2989	COG0444	Belongs to the ABC transporter superfamily
AFE_2990	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
AFE_2991	COG0601	transmembrane transport
AFE_2999	COG2095	MarC family integral membrane protein
AFE_3003	COG0811	peptide transport
AFE_3004	COG0848	biopolymer transport protein
AFE_3010	COG0604	alcohol dehydrogenase
AFE_3010	COG1028	Short-chain dehydrogenase reductase Sdr
AFE_3010	COG3321	synthase
AFE_3011	COG0156	8-amino-7-oxononanoate synthase activity
AFE_3015	COG1194	a g-specific adenine glycosylase
AFE_3018	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)
AFE_3019	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
AFE_3021	COG1660	Displays ATPase and GTPase activities
AFE_3022	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
AFE_3023	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
AFE_3023	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
AFE_3023	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
AFE_3027	COG1934	Involved in the assembly of lipopolysaccharide (LPS). Required for the translocation of LPS from the inner membrane to the outer membrane. May form a bridge between the inner membrane and the outer membrane, via interactions with LptC and LptD, thereby facilitating LPS transfer across the periplasm
AFE_3029	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
AFE_3033	COG3178	'Phosphotransferase
AFE_3034	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
AFE_3035	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
AFE_3036	COG0842	Transport permease protein
AFE_3037	COG0271	Belongs to the BolA IbaG family
AFE_3038	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
AFE_3039	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
AFE_3040	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
AFE_3042	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
AFE_3043	COG0131	Imidazoleglycerol-phosphate dehydratase
AFE_3044	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
AFE_3045	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
AFE_3046	COG0107	imidazoleglycerol-phosphate synthase activity
AFE_3047	COG0140	phosphoribosyl-ATP diphosphatase activity
AFE_3047	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
AFE_3048	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
AFE_3049	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
AFE_3050	COG0805	protein transport
AFE_3051	COG1850	ribulose-bisphosphate carboxylase activity
AFE_3059	COG0540	Belongs to the ATCase OTCase family
AFE_3060	COG2065	Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant
AFE_3061	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
AFE_3062	COG1678	Uncharacterized ACR, COG1678
AFE_3063	COG0189	ligase activity
AFE_3067	COG0316	Belongs to the HesB IscA family
AFE_3068	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
AFE_3069	COG0022	dehydrogenase e1 component
AFE_3069	COG0508	dehydrogenase complex catalyzes the overall conversion of
AFE_3070	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
AFE_3073	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
AFE_3074	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
AFE_3075	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
AFE_3079	COG0778	Nitroreductase
AFE_3086	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
AFE_3089	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
AFE_3092	COG0218	Necessary for normal cell division and for the maintenance of normal septation
AFE_3093	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
AFE_3094	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
AFE_3094	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
AFE_3095	COG1611	Belongs to the LOG family
AFE_3097	COG2334	A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response
AFE_3100	COG1555	photosystem II stabilization
AFE_3101	COG0210	DNA helicase
AFE_3104	COG1796	DNA polymerase
AFE_3104	COG1387	Histidinol phosphatase and related hydrolases of the PHP family
AFE_3108	COG1028	Short-chain dehydrogenase reductase Sdr
AFE_3109	COG0723	plastoquinol--plastocyanin reductase activity
AFE_3110	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
AFE_3112	COG1333	cytochrome c biogenesis protein
AFE_3113	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
AFE_3121	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
AFE_3122	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
AFE_3123	COG0175	sulfate reduction
AFE_3125	COG2895	sulfate adenylyltransferase (ATP) activity
AFE_3131	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
AFE_3137	COG4567	Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain
AFE_3142	COG2814	Major facilitator Superfamily
AFE_3143	COG0109	protoheme IX farnesyltransferase activity
AFE_3146	COG4454	pyrroloquinoline quinone binding
AFE_3149	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
AFE_3150	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
AFE_3158	COG0326	Molecular chaperone. Has ATPase activity
AFE_3161	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
AFE_3164	COG1131	(ABC) transporter
AFE_3176	COG1484	DNA-dependent DNA replication
AFE_3177	COG4584	PFAM Integrase catalytic
AFE_3186	COG1715	Restriction endonuclease
AFE_3193	COG1196	nuclear chromosome segregation
AFE_3201	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
AFE_3204	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
AFE_3205	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
AFE_3206	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
AFE_3207	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
AFE_3209	COG0356	it plays a direct role in the translocation of protons across the membrane
AFE_3211	COG1475	DNA binding
AFE_3212	COG1192	Involved in chromosome partitioning
AFE_3213	COG0357	Ribosomal RNA small subunit methyltransferase G
AFE_3214	COG0445	tRNA wobble uridine modification
AFE_3217	COG0521	Mo-molybdopterin cofactor biosynthetic process
AFE_3223	COG0655	NAD(P)H dehydrogenase (quinone) activity
AFE_3236	COG1131	(ABC) transporter
AFE_3237	COG2945	thiolester hydrolase activity
AFE_3239	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
AFE_3240	COG1959	2 iron, 2 sulfur cluster binding
AFE_3242	COG0134	indole-3-glycerol-phosphate synthase activity
AFE_3243	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
AFE_3246	COG0546	phosphoglycolate phosphatase activity
AFE_3247	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
AFE_3250	COG0126	phosphoglycerate kinase activity
AFE_3251	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
AFE_3252	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
AFE_3253	COG1494	fructose-1,6-bisphosphatase
AFE_3254	COG0483	inositol monophosphate 1-phosphatase activity
AFE_3257	COG1385	rRNA (uridine-N3-)-methyltransferase activity
AFE_3258	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
AFE_3259	COG1322	Protein conserved in bacteria
AFE_3260	COG1970	mechanosensitive ion channel activity
AFE_3262	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
AFE_3264	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
AFE_3267	COG1671	Belongs to the UPF0178 family
AFE_3274	COG0745	RESPONSE REGULATOR receiver
AFE_3275	COG2205	protein histidine kinase activity
AFE_3277	COG0165	Argininosuccinate lyase
AFE_3280	COG1881	PFAM PEBP family protein
AFE_3285	COG2181	nitrate reductase activity
AFE_3285	COG0247	lactate metabolic process
AFE_3287	COG0375	protein maturation
AFE_3290	COG0409	Hydrogenase expression formation protein
AFE_3293	COG0836	Belongs to the mannose-6-phosphate isomerase type 2 family
AFE_3293	COG0662	Cupin 2, conserved barrel domain protein
AFE_3298	COG0113	porphobilinogen synthase activity
AFE_3300	COG0181	hydroxymethylbilane synthase activity
AFE_3302	COG0537	adenosine 5'-monophosphoramidase activity
AFE_3303	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
AFE_3304	COG0352	thiamine-phosphate diphosphorylase activity
AFE_3305	COG0351	phosphomethylpyrimidine kinase
AFE_3309	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