locus-tag	class	description
Apre_0001	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
Apre_0002	COG0592	DNA-directed DNA polymerase activity
Apre_0004	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
Apre_0005	COG0187	DNA topoisomerase II activity
Apre_0006	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
Apre_0007	COG1366	Belongs to the anti-sigma-factor antagonist family
Apre_0009	COG1191	sigma factor activity
Apre_0014	COG4166	transmembrane transport
Apre_0015	COG4166	transmembrane transport
Apre_0016	COG0601	transmembrane transport
Apre_0017	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
Apre_0018	COG0444	Belongs to the ABC transporter superfamily
Apre_0019	COG4608	Belongs to the ABC transporter superfamily
Apre_0021	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
Apre_0027	COG3708	Transcriptional regulator
Apre_0027	COG2207	Transcriptional regulator
Apre_0028	COG1115	amino acid carrier protein
Apre_0030	COG0542	response to heat
Apre_0031	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
Apre_0035	COG1349	DNA-binding transcription factor activity
Apre_0037	COG1015	Phosphotransfer between the C1 and C5 carbon atoms of pentose
Apre_0038	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
Apre_0041	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
Apre_0043	COG4120	Belongs to the binding-protein-dependent transport system permease family
Apre_0047	COG3634	alkyl hydroperoxide reductase activity
Apre_0048	COG0450	alkyl hydroperoxide reductase
Apre_0052	COG1176	ABC-type spermidine putrescine transport system, permease component I
Apre_0053	COG3842	ATPase activity
Apre_0055	COG1929	Belongs to the glycerate kinase type-1 family
Apre_0056	COG0457	Tetratricopeptide repeat
Apre_0056	COG0705	Rhomboid family
Apre_0058	COG1164	Oligoendopeptidase f
Apre_0060	COG0584	glycerophosphoryl diester phosphodiesterase
Apre_0062	COG1175	transmembrane transport
Apre_0063	COG0395	ABC-type sugar transport system, permease component
Apre_0064	COG3842	ATPase activity
Apre_0070	COG0698	ribose 5-phosphate isomerase
Apre_0071	COG2211	Major facilitator Superfamily
Apre_0073	COG1349	DNA-binding transcription factor activity
Apre_0075	COG2222	sugar isomerase
Apre_0076	COG2188	Transcriptional regulator
Apre_0078	COG1105	Belongs to the carbohydrate kinase PfkB family
Apre_0079	COG3684	Belongs to the aldolase LacD family
Apre_0081	COG1960	acyl-CoA dehydrogenase activity
Apre_0083	COG1263	PTS System
Apre_0083	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
Apre_0086	COG0745	RESPONSE REGULATOR receiver
Apre_0087	COG5002	protein histidine kinase activity
Apre_0091	COG5263	repeat protein
Apre_0091	COG0366	Alpha amylase catalytic
Apre_0092	COG1027	Aspartate ammonia-lyase
Apre_0093	COG0114	fumarate hydratase activity
Apre_0096	COG1301	dicarboxylic acid transport
Apre_0099	COG1115	amino acid carrier protein
Apre_0101	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
Apre_0106	COG0598	Magnesium transport protein CorA
Apre_0109	COG1363	Peptidase, m42
Apre_0110	COG4894	glucomannan catabolic process
Apre_0111	COG1609	Transcriptional regulator
Apre_0114	COG3243	poly(R)-hydroxyalkanoic acid synthase
Apre_0115	COG2030	dehydratase
Apre_0116	COG0385	Bile acid
Apre_0117	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
Apre_0118	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
Apre_0121	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
Apre_0122	COG0569	domain protein
Apre_0123	COG2738	Putative neutral zinc metallopeptidase
Apre_0124	COG4463	regulation of RNA biosynthetic process
Apre_0125	COG3880	PFAM UvrB UvrC protein
Apre_0126	COG3869	Catalyzes the specific phosphorylation of arginine residues in
Apre_0127	COG0542	response to heat
Apre_0131	COG1175	transmembrane transport
Apre_0132	COG3833	ABC-type maltose transport systems, permease component
Apre_0133	COG3842	ATPase activity
Apre_0134	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
Apre_0136	COG1066	DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function
Apre_0138	COG1053	succinate dehydrogenase
Apre_0140	COG3579	cysteine-type endopeptidase activity
Apre_0141	COG1482	cell wall glycoprotein biosynthetic process
Apre_0142	COG3842	ATPase activity
Apre_0144	COG4209	transmembrane transport
Apre_0145	COG0395	ABC-type sugar transport system, permease component
Apre_0148	COG3291	Pkd domain containing protein
Apre_0148	COG3525	Glycosyl hydrolase, family 20, catalytic domain
Apre_0149	COG0383	alpha-mannosidase activity
Apre_0153	COG2723	6-phospho-beta-galactosidase activity
Apre_0154	COG1940	carbohydrate kinase activity
Apre_0155	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
Apre_0156	COG0546	phosphoglycolate phosphatase activity
Apre_0159	COG0438	transferase activity, transferring glycosyl groups
Apre_0166	COG3859	Proton-coupled thiamine transporter YuaJ
Apre_0168	COG1131	(ABC) transporter
Apre_0172	COG1597	lipid kinase activity
Apre_0174	COG4956	integral membrane protein (PIN domain superfamily)
Apre_0175	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
Apre_0177	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
Apre_0178	COG1077	Cell shape determining protein MreB Mrl
Apre_0182	COG0802	atpase or kinase
Apre_0183	COG1214	PFAM Peptidase M22, glycoprotease
Apre_0184	COG1846	Transcriptional regulator
Apre_0184	COG0456	acetyltransferase
Apre_0185	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
Apre_0190	COG1304	FMN binding
Apre_0191	COG1725	Transcriptional regulator
Apre_0192	COG1131	(ABC) transporter
Apre_0194	COG1461	Dihydroxyacetone kinase
Apre_0199	COG0673	inositol 2-dehydrogenase activity
Apre_0201	COG3715	PTS system
Apre_0202	COG3716	PTS system mannose fructose sorbose family IID component
Apre_0204	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
Apre_0205	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
Apre_0207	COG0668	transmembrane transport
Apre_0208	COG4481	Protein conserved in bacteria
Apre_0213	COG2519	Catalyzes the S-adenosyl-L-methionine-dependent formation of N(1)-methyladenine at position 58 (m1A58) in tRNA
Apre_0215	COG1132	(ABC) transporter
Apre_0216	COG0561	phosphatase activity
Apre_0217	COG0561	phosphatase activity
Apre_0218	COG2190	(PTS) system
Apre_0218	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
Apre_0218	COG1263	PTS System
Apre_0227	COG4152	abc transporter atp-binding protein
Apre_0228	COG1668	transmembrane transport
Apre_0229	COG0281	malic enzyme
Apre_0231	COG0561	phosphatase activity
Apre_0232	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
Apre_0233	COG0037	tRNA processing
Apre_0235	COG0519	Catalyzes the synthesis of GMP from XMP
Apre_0236	COG2207	Transcriptional regulator
Apre_0237	COG3345	alpha-galactosidase
Apre_0238	COG1653	transport
Apre_0239	COG1175	transmembrane transport
Apre_0240	COG0395	ABC-type sugar transport system, permease component
Apre_0241	COG0366	Alpha amylase catalytic
Apre_0242	COG3842	ATPase activity
Apre_0243	COG0366	Alpha amylase catalytic
Apre_0244	COG0786	glutamate:sodium symporter activity
Apre_0245	COG1216	Glycosyl transferase, family 2
Apre_0252	COG3842	ATPase activity
Apre_0254	COG0395	ABC-type sugar transport system, permease component
Apre_0255	COG1653	transport
Apre_0258	COG2235	arginine
Apre_0267	COG2239	Acts as a magnesium transporter
Apre_0271	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
Apre_0272	COG1160	GTP binding
Apre_0274	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
Apre_0275	COG2011	ABC-type metal ion transport system permease component
Apre_0276	COG1464	Belongs to the NlpA lipoprotein family
Apre_0277	COG1464	Belongs to the NlpA lipoprotein family
Apre_0278	COG1301	dicarboxylic acid transport
Apre_0280	COG1897	L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine
Apre_0282	COG0386	Belongs to the glutathione peroxidase family
Apre_0284	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)
Apre_0285	COG1051	belongs to the nudix hydrolase family
Apre_0287	COG0577	efflux transmembrane transporter activity
Apre_0287	COG1136	(ABC) transporter
Apre_0289	COG0577	efflux transmembrane transporter activity
Apre_0289	COG1136	(ABC) transporter
Apre_0291	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
Apre_0293	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
Apre_0294	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
Apre_0315	COG0635	Involved in the biosynthesis of porphyrin-containing compound
Apre_0316	COG2195	Cleaves the N-terminal amino acid of tripeptides
Apre_0317	COG1924	4 iron, 4 sulfur cluster binding
Apre_0319	COG1687	branched-chain amino acid
Apre_0320	COG1296	Branched-chain amino acid permease (Azaleucine resistance)
Apre_0327	COG4864	UPF0365 protein
Apre_0329	COG1702	phosphate starvation-inducible protein PhoH
Apre_0330	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
Apre_0331	COG0295	cytidine deaminase activity
Apre_0332	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
Apre_0333	COG1381	Involved in DNA repair and RecF pathway recombination
Apre_0336	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
Apre_0337	COG0519	Catalyzes the synthesis of GMP from XMP
Apre_0344	COG2855	membrane
Apre_0345	COG0583	DNA-binding transcription factor activity
Apre_0346	COG2189	Belongs to the N(4) N(6)-methyltransferase family
Apre_0347	COG3421	Type III restriction
Apre_0349	COG0433	COG0433 Predicted ATPase
Apre_0351	COG0542	response to heat
Apre_0355	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
Apre_0356	COG0798	PFAM Bile acid sodium symporter
Apre_0361	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
Apre_0361	COG3608	succinylglutamate desuccinylase aspartoacylase
Apre_0362	COG3608	succinylglutamate desuccinylase aspartoacylase
Apre_0362	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
Apre_0364	COG0346	lactoylglutathione lyase activity
Apre_0365	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
Apre_0368	COG0709	Synthesizes selenophosphate from selenide and ATP
Apre_0370	COG1624	Catalyzes the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP), a second messenger used to regulate differing processes in different bacteria
Apre_0372	COG0617	tRNA 3'-terminal CCA addition
Apre_0373	COG0544	peptidyl-prolyl cis-trans isomerase activity
Apre_0374	COG0740	serine-type endopeptidase activity
Apre_0375	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
Apre_0376	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
Apre_0377	COG0218	Necessary for normal cell division and for the maintenance of normal septation
Apre_0378	COG1053	succinate dehydrogenase
Apre_0378	COG3976	FMN-binding domain protein
Apre_0381	COG1349	DNA-binding transcription factor activity
Apre_0382	COG1105	Belongs to the carbohydrate kinase PfkB family
Apre_0383	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
Apre_0383	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
Apre_0383	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
Apre_0385	COG1362	aminopeptidase activity
Apre_0386	COG0011	TIGRFAM Protein of
Apre_0389	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
Apre_0390	COG0444	Belongs to the ABC transporter superfamily
Apre_0391	COG4608	Belongs to the ABC transporter superfamily
Apre_0393	COG2252	PERMEase
Apre_0394	COG4536	flavin adenine dinucleotide binding
Apre_0396	COG1443	Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)
Apre_0397	COG1301	dicarboxylic acid transport
Apre_0402	COG1362	aminopeptidase activity
Apre_0404	COG0613	PHP domain protein
Apre_0407	COG1131	(ABC) transporter
Apre_0411	COG0628	permease
Apre_0414	COG0058	SHG alpha-glucan phosphorylase activity
Apre_0417	COG1132	(ABC) transporter
Apre_0427	COG0534	Mate efflux family protein
Apre_0429	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
Apre_0430	COG1725	Transcriptional regulator
Apre_0431	COG1131	(ABC) transporter
Apre_0433	COG2131	deaminase
Apre_0434	COG0561	phosphatase activity
Apre_0435	COG1105	Belongs to the carbohydrate kinase PfkB family
Apre_0436	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
Apre_0437	COG1181	Belongs to the D-alanine--D-alanine ligase family
Apre_0440	COG2848	UPF0210 protein
Apre_0441	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
Apre_0443	COG3855	fructose 1,6-bisphosphate 1-phosphatase activity
Apre_0446	COG0085	RNA polymerase activity
Apre_0447	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
Apre_0449	COG0038	chloride channel
Apre_0451	COG0534	Mate efflux family protein
Apre_0452	COG2077	Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides
Apre_0453	COG1263	PTS System
Apre_0453	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
Apre_0454	COG1486	melibiose metabolic process
Apre_0456	COG1737	Transcriptional regulator
Apre_0457	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
Apre_0458	COG0049	tRNA binding
Apre_0459	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
Apre_0460	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
Apre_0461	COG3443	Belongs to the bacterial solute-binding protein 9 family
Apre_0461	COG0803	Belongs to the bacterial solute-binding protein 9 family
Apre_0463	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Apre_0465	COG0601	transmembrane transport
Apre_0466	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
Apre_0467	COG0444	Belongs to the ABC transporter superfamily
Apre_0468	COG4608	Belongs to the ABC transporter superfamily
Apre_0469	COG4166	transmembrane transport
Apre_0473	COG1263	PTS System
Apre_0473	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
Apre_0474	COG0366	Alpha amylase catalytic
Apre_0478	COG1136	(ABC) transporter
Apre_0479	COG0366	Alpha amylase catalytic
Apre_0483	COG0360	Binds together with S18 to 16S ribosomal RNA
Apre_0484	COG0629	single-stranded DNA binding
Apre_0487	COG0137	argininosuccinate synthase activity
Apre_0488	COG0165	Argininosuccinate lyase
Apre_0489	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
Apre_0491	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
Apre_0492	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
Apre_0493	COG0248	Ppx GppA phosphatase
Apre_0494	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
Apre_0495	COG1876	peptidase activity
Apre_0498	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
Apre_0500	COG0803	Belongs to the bacterial solute-binding protein 9 family
Apre_0501	COG1121	(ABC) transporter
Apre_0502	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Apre_0503	COG1012	belongs to the aldehyde dehydrogenase family
Apre_0505	COG1960	acyl-CoA dehydrogenase activity
Apre_0507	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
Apre_0507	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
Apre_0508	COG1408	metallophosphoesterase
Apre_0510	COG1301	dicarboxylic acid transport
Apre_0516	COG0803	Belongs to the bacterial solute-binding protein 9 family
Apre_0517	COG1121	(ABC) transporter
Apre_0518	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Apre_0523	COG1074	ATP-dependent DNA helicase activity
Apre_0529	COG3303	Catalyzes the reduction of nitrite to ammonia, consuming six electrons in the process
Apre_0530	COG1333	cytochrome c biogenesis protein
Apre_0534	COG0359	binds to the 23S rRNA
Apre_0535	COG0305	Participates in initiation and elongation during chromosome replication
Apre_0538	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
Apre_0539	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
Apre_0541	COG0489	protein tyrosine kinase activity
Apre_0542	COG4464	protein tyrosine phosphatase activity
Apre_0544	COG0300	oxidoreductase activity
Apre_0545	COG0656	L-ascorbic acid biosynthetic process
Apre_0546	COG0753	catalase activity
Apre_0547	COG1309	transcriptional regulator
Apre_0548	COG2409	Drug exporters of the RND superfamily
Apre_0548	COG1033	growth of symbiont in host cell
Apre_0550	COG1142	4fe-4S ferredoxin, iron-sulfur binding domain protein
Apre_0550	COG0493	'glutamate synthase
Apre_0552	COG1132	(ABC) transporter
Apre_0553	COG0484	heat shock protein binding
Apre_0556	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
Apre_0556	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
Apre_0560	COG3682	Transcriptional regulator
Apre_0561	COG2217	Heavy metal translocating P-type atpase
Apre_0565	COG1104	cysteine desulfurase activity
Apre_0566	COG0482	sulfurtransferase activity
Apre_0581	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)
Apre_0582	COG0708	Exodeoxyribonuclease III
Apre_0583	COG0564	pseudouridine synthase activity
Apre_0584	COG0606	chelatase, subunit chli
Apre_0585	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
Apre_0591	COG1395	domain, Protein
Apre_0595	COG4589	Belongs to the CDS family
Apre_0596	COG0750	zinc metalloprotease
Apre_0605	COG1966	Carbon starvation protein
Apre_0606	COG0779	Required for maturation of 30S ribosomal subunits
Apre_0607	COG0195	Participates in both transcription termination and antitermination
Apre_0609	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
Apre_0611	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
Apre_0612	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
Apre_0613	COG0196	riboflavin kinase activity
Apre_0614	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
Apre_0615	COG1185	polyribonucleotide nucleotidyltransferase activity
Apre_0616	COG1674	ftsk spoiiie
Apre_0617	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
Apre_0618	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
Apre_0619	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
Apre_0620	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
Apre_0622	COG0037	tRNA processing
Apre_0625	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
Apre_0626	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
Apre_0627	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
Apre_0628	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
Apre_0633	COG1597	lipid kinase activity
Apre_0639	COG0671	phosphoesterase, PA-phosphatase related
Apre_0643	COG0745	RESPONSE REGULATOR receiver
Apre_0644	COG2205	protein histidine kinase activity
Apre_0645	COG0534	Mate efflux family protein
Apre_0646	COG0528	UMP kinase activity
Apre_0647	COG0233	cytoplasmic translational termination
Apre_0648	COG1459	type II secretion system
Apre_0650	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
Apre_0655	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
Apre_0656	COG0333	Belongs to the bacterial ribosomal protein bL32 family
Apre_0658	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
Apre_0659	COG0571	ribonuclease III activity
Apre_0663	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
Apre_0664	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
Apre_0664	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
Apre_0665	COG0820	rRNA (adenine-C2-)-methyltransferase activity
Apre_0667	COG2815	serine threonine protein kinase
Apre_0667	COG0515	serine threonine protein kinase
Apre_0668	COG1162	GTPase activity
Apre_0669	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
Apre_0670	COG0227	Belongs to the bacterial ribosomal protein bL28 family
Apre_0674	COG1481	regulation of sporulation
Apre_0676	COG0205	6-phosphofructokinase activity
Apre_0678	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
Apre_0684	COG1309	transcriptional regulator
Apre_0687	COG0444	Belongs to the ABC transporter superfamily
Apre_0688	COG4608	Belongs to the ABC transporter superfamily
Apre_0689	COG0747	negative chemotaxis
Apre_0690	COG1132	(ABC) transporter
Apre_0691	COG1132	(ABC) transporter
Apre_0701	COG0803	Belongs to the bacterial solute-binding protein 9 family
Apre_0702	COG1121	(ABC) transporter
Apre_0703	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Apre_0703	COG1321	iron dependent repressor
Apre_0704	COG1108	ABC-type Mn2 Zn2 transport systems permease components
Apre_0707	COG1132	(ABC) transporter
Apre_0708	COG1132	(ABC) transporter
Apre_0722	COG0830	nickel cation binding
Apre_0723	COG0378	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG
Apre_0724	COG0829	nickel cation binding
Apre_0726	COG0832	Belongs to the urease beta subunit family
Apre_0726	COG0831	urea catabolic process
Apre_0727	COG0804	urea catabolic process
Apre_0741	COG0745	RESPONSE REGULATOR receiver
Apre_0742	COG5002	protein histidine kinase activity
Apre_0743	COG1136	(ABC) transporter
Apre_0743	COG0577	efflux transmembrane transporter activity
Apre_0747	COG2183	response to ionizing radiation
Apre_0748	COG0442	prolyl-tRNA aminoacylation
Apre_0749	COG0191	fructose-bisphosphate aldolase activity
Apre_0750	COG1158	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template
Apre_0751	COG0254	rRNA binding
Apre_0752	COG2890	protein-(glutamine-N5) methyltransferase activity
Apre_0753	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
Apre_0755	COG0009	L-threonylcarbamoyladenylate synthase
Apre_0756	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
Apre_0757	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
Apre_0758	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
Apre_0759	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
Apre_0760	COG0772	Belongs to the SEDS family
Apre_0761	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
Apre_0762	COG0561	phosphatase activity
Apre_0763	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
Apre_0766	COG0126	phosphoglycerate kinase activity
Apre_0767	COG0149	triose-phosphate isomerase activity
Apre_0768	COG0148	phosphopyruvate hydratase activity
Apre_0770	COG0557	exoribonuclease II activity
Apre_0771	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
Apre_0780	COG0540	Belongs to the ATCase OTCase family
Apre_0781	COG1781	'de novo' pyrimidine nucleobase biosynthetic process
Apre_0784	COG0543	2 iron, 2 sulfur cluster binding
Apre_0785	COG0167	dihydroorotate dehydrogenase activity
Apre_0790	COG2812	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
Apre_0791	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
Apre_0792	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
Apre_0794	COG1621	beta-fructofuranosidase activity
Apre_0795	COG0582	viral genome integration into host DNA
Apre_0797	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
Apre_0811	COG0629	single-stranded DNA binding
Apre_0832	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
Apre_0868	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
Apre_0869	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
Apre_0870	COG0297	glycogen (starch) synthase activity
Apre_0871	COG0058	SHG alpha-glucan phosphorylase activity
Apre_0872	COG1523	belongs to the glycosyl hydrolase 13 family
Apre_0873	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
Apre_0874	COG1716	ATPase activity
Apre_0876	COG0768	penicillin binding
Apre_0877	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
Apre_0879	COG4980	gas vesicle protein
Apre_0883	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)
Apre_0885	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
Apre_0886	COG2996	Protein conserved in bacteria
Apre_0888	COG2195	Cleaves the N-terminal amino acid of tripeptides
Apre_0893	COG0564	pseudouridine synthase activity
Apre_0894	COG1940	carbohydrate kinase activity
Apre_0895	COG0745	RESPONSE REGULATOR receiver
Apre_0896	COG5002	protein histidine kinase activity
Apre_0898	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
Apre_0903	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
Apre_0904	COG0632	four-way junction helicase activity
Apre_0905	COG2255	four-way junction helicase activity
Apre_0906	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
Apre_0907	COG0343	queuine tRNA-ribosyltransferase activity
Apre_0910	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
Apre_0912	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
Apre_0915	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
Apre_0916	COG1160	GTP binding
Apre_0917	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
Apre_0918	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
Apre_0919	COG1799	cell septum assembly
Apre_0922	COG0692	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
Apre_0924	COG1104	cysteine desulfurase activity
Apre_0925	COG0301	tRNA thio-modification
Apre_0926	COG0261	This protein binds to 23S rRNA in the presence of protein L20
Apre_0927	COG2868	ribosomal protein
Apre_0929	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
Apre_0930	COG1534	Rna-binding protein
Apre_0931	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
Apre_0932	COG1713	HD superfamily hydrolase involved in NAD metabolism
Apre_0933	COG0799	negative regulation of ribosome biogenesis
Apre_0934	COG1555	photosystem II stabilization
Apre_0934	COG1596	polysaccharide export
Apre_0936	COG0013	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain
Apre_0937	COG4472	Bacterial protein of unknown function (DUF965)
Apre_0940	COG0735	belongs to the Fur family
Apre_0941	COG0595	An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and or decay
Apre_0945	COG2195	Cleaves the N-terminal amino acid of tripeptides
Apre_0946	COG0756	dUTP diphosphatase activity
Apre_0948	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
Apre_0949	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
Apre_0950	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)
Apre_0951	COG4100	CystaTHIonine beta-lyase family protein involved in aluminum resistance
Apre_0952	COG4974	Belongs to the 'phage' integrase family
Apre_0953	COG1418	mRNA catabolic process
Apre_0954	COG1045	serine acetyltransferase
Apre_0956	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
Apre_0957	COG0052	Belongs to the universal ribosomal protein uS2 family
Apre_0958	COG0552	protein localization to endoplasmic reticulum
Apre_0959	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
Apre_0960	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
Apre_0966	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
Apre_0967	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
Apre_0968	COG0193	aminoacyl-tRNA hydrolase activity
Apre_0971	COG0813	purine-nucleoside phosphorylase activity
Apre_0972	COG0698	ribose 5-phosphate isomerase
Apre_0973	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
Apre_0974	COG2337	Toxic component of a toxin-antitoxin (TA) module
Apre_0976	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
Apre_0976	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
Apre_0977	COG0402	S-adenosylhomocysteine deaminase activity
Apre_0978	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)
Apre_0979	COG0154	amidase activity
Apre_0980	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)
Apre_0981	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
Apre_0983	COG4496	protein, YerC YecD
Apre_0984	COG3442	glutamine amidotransferase
Apre_0985	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
Apre_0986	COG1254	Belongs to the acylphosphatase family
Apre_0989	COG1302	Protein conserved in bacteria
Apre_0996	COG0778	Nitroreductase
Apre_0999	COG1704	LemA family
Apre_1000	COG0602	queuosine metabolic process
Apre_1001	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
Apre_1001	COG1328	CTP reductase activity
Apre_1004	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
Apre_1005	COG1316	TRANSCRIPTIONal
Apre_1006	COG1982	Orn Lys Arg decarboxylase major
Apre_1014	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
Apre_1015	COG1269	ATP hydrolysis coupled proton transport
Apre_1018	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
Apre_1019	COG0539	negative regulation of cytoplasmic translation
Apre_1019	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
Apre_1022	COG2081	HI0933 family
Apre_1023	COG1187	pseudouridine synthase activity
Apre_1026	COG0494	nUDIX hydrolase
Apre_1027	COG0497	DNA recombination
Apre_1028	COG1438	arginine binding
Apre_1031	COG1570	exodeoxyribonuclease VII activity
Apre_1032	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
Apre_1034	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
Apre_1035	COG1323	Belongs to the UPF0348 family
Apre_1037	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
Apre_1038	COG0742	ribosomal rna small subunit methyltransferase
Apre_1039	COG1200	Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y-DNA)
Apre_1040	COG1461	Dihydroxyacetone kinase
Apre_1043	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
Apre_1044	COG0322	excinuclease ABC activity
Apre_1045	COG0006	proline dipeptidase activity
Apre_1046	COG0012	GTP binding
Apre_1047	COG1435	thymidine kinase activity
Apre_1050	COG0210	DNA helicase
Apre_1051	COG0285	dihydrofolate synthase activity
Apre_1052	COG0693	protein deglycase activity
Apre_1055	COG0220	tRNA (guanine-N7-)-methyltransferase activity
Apre_1056	COG1307	EDD domain protein, DegV family
Apre_1057	COG1956	GAF domain-containing protein
Apre_1058	COG1393	Belongs to the ArsC family
Apre_1062	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
Apre_1063	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
Apre_1063	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
Apre_1063	COG1013	pyruvate-flavodoxin oxidoreductase activity
Apre_1063	COG0674	pyruvate-flavodoxin oxidoreductase activity
Apre_1064	COG3633	Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
Apre_1065	COG0039	L-malate dehydrogenase activity
Apre_1066	COG0392	lysyltransferase activity
Apre_1066	COG2898	Catalyzes the transfer of a lysyl group from L-lysyl- tRNA(Lys) to membrane-bound phosphatidylglycerol (PG), which produces lysylphosphatidylglycerol (LPG), a major component of the bacterial membrane with a positive net charge. LPG synthesis contributes to bacterial virulence as it is involved in the resistance mechanism against cationic antimicrobial peptides (CAMP) produces by the host's immune system (defensins, cathelicidins) and by the competing microorganisms
Apre_1069	COG2195	Cleaves the N-terminal amino acid of tripeptides
Apre_1070	COG1011	Hydrolase
Apre_1071	COG0424	maF-like protein
Apre_1072	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
Apre_1074	COG1309	transcriptional regulator
Apre_1077	COG3596	GTP binding
Apre_1079	COG2509	5-formyltetrahydrofolate cyclo-ligase activity
Apre_1080	COG2376	Dihydroxyacetone kinase
Apre_1082	COG3412	dihydroxyacetone kinase, phosphotransfer subunit
Apre_1091	COG1136	(ABC) transporter
Apre_1092	COG2205	protein histidine kinase activity
Apre_1096	COG1309	transcriptional regulator
Apre_1099	COG1024	Enoyl-CoA hydratase
Apre_1100	COG0372	Belongs to the citrate synthase family
Apre_1101	COG0473	3-isopropylmalate dehydrogenase activity
Apre_1102	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
Apre_1104	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
Apre_1105	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
Apre_1106	COG0517	IMP dehydrogenase activity
Apre_1106	COG0516	GMP reductase activity
Apre_1107	COG0151	Belongs to the GarS family
Apre_1109	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
Apre_1110	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
Apre_1111	COG2759	Belongs to the formate--tetrahydrofolate ligase family
Apre_1112	COG0402	S-adenosylhomocysteine deaminase activity
Apre_1114	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
Apre_1121	COG4129	membrane
Apre_1125	COG1774	PSP1 C-terminal conserved region
Apre_1127	COG3870	Protein conserved in bacteria
Apre_1128	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
Apre_1129	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
Apre_1130	COG2077	Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides
Apre_1131	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
Apre_1132	COG3103	Sh3 type 3 domain protein
Apre_1132	COG0791	NLP P60 protein
Apre_1132	COG1388	LysM domain
Apre_1135	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
Apre_1136	COG0358	DNA primase activity
Apre_1137	COG1917	Cupin 2, conserved barrel domain protein
Apre_1137	COG2207	Transcriptional regulator
Apre_1140	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
Apre_1142	COG2321	neutral zinc metallopeptidase
Apre_1143	COG0735	belongs to the Fur family
Apre_1144	COG0222	ribosome binding
Apre_1145	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
Apre_1146	COG0081	regulation of translation
Apre_1147	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
Apre_1148	COG0250	Participates in transcription elongation, termination and antitermination
Apre_1150	COG0267	Belongs to the bacterial ribosomal protein bL33 family
Apre_1152	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
Apre_1154	COG4123	Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC)
Apre_1155	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
Apre_1158	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
Apre_1159	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
Apre_1159	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
Apre_1163	COG0537	adenosine 5'-monophosphoramidase activity
Apre_1164	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
Apre_1165	COG0484	heat shock protein binding
Apre_1166	COG0443	Heat shock 70 kDa protein
Apre_1167	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
Apre_1169	COG1024	Enoyl-CoA hydratase
Apre_1169	COG1250	3-hydroxyacyl-CoA dehydrogenase
Apre_1170	COG0635	Involved in the biosynthesis of porphyrin-containing compound
Apre_1174	COG1595	DNA-templated transcription, initiation
Apre_1177	COG0635	Involved in the biosynthesis of porphyrin-containing compound
Apre_1181	COG1573	uracil-dna glycosylase
Apre_1182	COG0481	GTPase activity
Apre_1183	COG0681	Belongs to the peptidase S26 family
Apre_1184	COG0268	Binds directly to 16S ribosomal RNA
Apre_1186	COG2333	competence protein COMEC
Apre_1186	COG0658	competence protein
Apre_1197	COG0495	leucyl-tRNA aminoacylation
Apre_1199	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
Apre_1200	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
Apre_1201	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
Apre_1203	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)
Apre_1204	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
Apre_1205	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
Apre_1208	COG2001	Belongs to the MraZ family
Apre_1210	COG0217	transcriptional regulatory protein
Apre_1211	COG1739	Uncharacterized protein family UPF0029
Apre_1212	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
Apre_1215	COG0745	RESPONSE REGULATOR receiver
Apre_1216	COG2205	protein histidine kinase activity
Apre_1220	COG1201	RNA secondary structure unwinding
Apre_1224	COG1846	Transcriptional regulator
Apre_1226	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
Apre_1227	COG1177	transmembrane transport
Apre_1228	COG1176	ABC-type spermidine putrescine transport system, permease component I
Apre_1229	COG3842	ATPase activity
Apre_1231	COG3681	Belongs to the UPF0597 family
Apre_1232	COG0039	L-malate dehydrogenase activity
Apre_1234	COG2267	carboxylic ester hydrolase activity
Apre_1239	COG1278	Cold shock
Apre_1241	COG0525	valine-tRNA ligase activity
Apre_1243	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)
Apre_1243	COG0574	Belongs to the PEP-utilizing enzyme family
Apre_1244	COG1012	belongs to the aldehyde dehydrogenase family
Apre_1245	COG0733	neurotransmitter:sodium symporter activity
Apre_1246	COG0733	neurotransmitter:sodium symporter activity
Apre_1249	COG0653	protein targeting
Apre_1251	COG1506	peptidase
Apre_1251	COG0823	Involved in the tonB-independent uptake of proteins
Apre_1251	COG4946	Tricorn protease homolog
Apre_1253	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
Apre_1254	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
Apre_1269	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
Apre_1270	COG0027	Involved in the de novo purine biosynthesis. Catalyzes the transfer of formate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR). Formate is provided by PurU via hydrolysis of 10-formyl-tetrahydrofolate
Apre_1271	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
Apre_1273	COG0728	peptidoglycan biosynthetic process
Apre_1274	COG0728	peptidoglycan biosynthetic process
Apre_1275	COG1316	TRANSCRIPTIONal
Apre_1280	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
Apre_1281	COG0572	uridine kinase
Apre_1282	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
Apre_1284	COG0590	tRNA wobble adenosine to inosine editing
Apre_1285	COG1686	Belongs to the peptidase S11 family
Apre_1288	COG1970	mechanosensitive ion channel activity
Apre_1289	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
Apre_1290	COG0758	DNA mediated transformation
Apre_1292	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
Apre_1299	COG0335	large ribosomal subunit rRNA binding
Apre_1300	COG0336	Belongs to the RNA methyltransferase TrmD family
Apre_1301	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
Apre_1302	COG1837	Belongs to the UPF0109 family
Apre_1303	COG0228	four-way junction DNA binding
Apre_1304	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
Apre_1309	COG1131	(ABC) transporter
Apre_1312	COG2827	Endonuclease containing a URI domain
Apre_1313	COG1530	ribonuclease E activity
Apre_1315	COG0768	penicillin binding
Apre_1317	COG1792	Involved in formation and maintenance of cell shape
Apre_1319	COG2003	Belongs to the UPF0758 family
Apre_1322	COG1245	4Fe-4S binding domain
Apre_1322	COG2878	Part of a membrane complex involved in electron transport
Apre_1323	COG4657	Part of a membrane complex involved in electron transport
Apre_1324	COG4660	Part of a membrane complex involved in electron transport
Apre_1326	COG4658	electron transport chain
Apre_1327	COG4656	Part of a membrane complex involved in electron transport
Apre_1329	COG0237	dephospho-CoA kinase activity
Apre_1330	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
Apre_1330	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
Apre_1335	COG0018	arginyl-trna synthetase
Apre_1336	COG1193	negative regulation of DNA recombination
Apre_1337	COG0826	peptidase U32
Apre_1339	COG0072	phenylalanine-tRNA ligase activity
Apre_1339	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
Apre_1340	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
Apre_1341	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
Apre_1342	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
Apre_1343	COG0291	Belongs to the bacterial ribosomal protein bL35 family
Apre_1344	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
Apre_1346	COG1307	EDD domain protein, DegV family
Apre_1348	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
Apre_1350	COG0427	acetyl-CoA hydrolase
Apre_1352	COG1250	3-hydroxyacyl-CoA dehydrogenase
Apre_1353	COG1024	Enoyl-CoA hydratase
Apre_1354	COG2025	fatty acid beta-oxidation using acyl-CoA dehydrogenase
Apre_1356	COG1960	acyl-CoA dehydrogenase activity
Apre_1357	COG0277	FAD linked oxidase domain protein
Apre_1358	COG1380	Effector of murein hydrolase LrgA
Apre_1359	COG1346	cytolysis
Apre_1361	COG0789	Transcriptional regulator
Apre_1361	COG4978	Transcriptional regulator
Apre_1362	COG2033	superoxide reductase activity
Apre_1365	COG1132	(ABC) transporter
Apre_1366	COG1132	(ABC) transporter
Apre_1370	COG0728	peptidoglycan biosynthetic process
Apre_1374	COG0745	RESPONSE REGULATOR receiver
Apre_1375	COG0704	Plays a role in the regulation of phosphate uptake
Apre_1376	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
Apre_1378	COG0573	inorganic phosphate transmembrane transporter activity
Apre_1379	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
Apre_1382	COG3090	Trap-type c4-dicarboxylate transport system, small permease component
Apre_1388	COG0561	phosphatase activity
Apre_1391	COG1528	Iron-storage protein
Apre_1394	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
Apre_1395	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
Apre_1397	COG0351	phosphomethylpyrimidine kinase
Apre_1397	COG0352	thiamine-phosphate diphosphorylase activity
Apre_1398	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
Apre_1399	COG0569	domain protein
Apre_1403	COG1242	4 iron, 4 sulfur cluster binding
Apre_1404	COG0686	Belongs to the AlaDH PNT family
Apre_1406	COG0178	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate
Apre_1407	COG0556	nucleotide-excision repair
Apre_1408	COG0640	Transcriptional regulator
Apre_1410	COG2217	Heavy metal translocating P-type atpase
Apre_1412	COG1114	Component of the transport system for branched-chain amino acids
Apre_1413	COG0514	ATP-dependent DNA helicase (RecQ)
Apre_1416	COG0101	tRNA pseudouridine synthase activity
Apre_1417	COG0619	Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates
Apre_1418	COG1122	ATPase activity
Apre_1419	COG1122	ATPase activity
Apre_1421	COG0116	Belongs to the methyltransferase superfamily
Apre_1422	COG2080	2 iron, 2 sulfur cluster binding
Apre_1423	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
Apre_1424	COG1529	Aldehyde oxidase and xanthine dehydrogenase
Apre_1427	COG0402	S-adenosylhomocysteine deaminase activity
Apre_1428	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
Apre_1428	COG0493	'glutamate synthase
Apre_1429	COG0549	Belongs to the carbamate kinase family
Apre_1432	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
Apre_1433	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
Apre_1435	COG1802	Transcriptional regulator
Apre_1436	COG0521	Mo-molybdopterin cofactor biosynthetic process
Apre_1439	COG0315	cyclic pyranopterin monophosphate synthase activity
Apre_1440	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
Apre_1441	COG3842	ATPase activity
Apre_1442	COG4149	molybdate abc transporter
Apre_1443	COG0725	ABC transporter, periplasmic molybdate-binding protein
Apre_1456	COG0716	FMN binding
Apre_1464	COG1302	Protein conserved in bacteria
Apre_1467	COG0488	(ABC) transporter
Apre_1472	COG1773	rubredoxin
Apre_1473	COG1773	rubredoxin
Apre_1478	COG0846	NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form
Apre_1480	COG1131	(ABC) transporter
Apre_1489	COG0446	pyridine nucleotide-disulphide oxidoreductase
Apre_1490	COG0579	oxidoreductase
Apre_1491	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
Apre_1492	COG1954	Regulates expression of the glpD operon. In the presence of glycerol 3-phosphate (G3P) causes antitermination of transcription of glpD at the inverted repeat of the leader region to enhance its transcription. Binds and stabilizes glpD leader mRNA
Apre_1493	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
Apre_1494	COG1187	pseudouridine synthase activity
Apre_1495	COG1695	Transcriptional regulator
Apre_1496	COG0210	DNA helicase
Apre_1498	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
Apre_1500	COG0459	protein refolding
Apre_1501	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
Apre_1503	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
Apre_1505	COG2081	HI0933 family
Apre_1506	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
Apre_1509	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
Apre_1511	COG0084	hydrolase, TatD family'
Apre_1512	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
Apre_1512	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
Apre_1513	COG1115	amino acid carrier protein
Apre_1514	COG0162	Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction tyrosine is first activated by ATP to form Tyr- AMP and then transferred to the acceptor end of tRNA(Tyr)
Apre_1518	COG1132	(ABC) transporter
Apre_1519	COG2197	response regulator
Apre_1523	COG1129	ABC transporter
Apre_1531	COG1827	regulation of RNA biosynthetic process
Apre_1532	COG0765	amino acid transport
Apre_1538	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
Apre_1540	COG1263	PTS System
Apre_1540	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
Apre_1543	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
Apre_1544	COG1737	Transcriptional regulator
Apre_1545	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
Apre_1546	COG0203	ribosomal protein L17
Apre_1547	COG0202	RNA polymerase activity
Apre_1548	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
Apre_1549	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
Apre_1550	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
Apre_1551	COG0257	Belongs to the bacterial ribosomal protein bL36 family
Apre_1553	COG0563	adenylate kinase activity
Apre_1555	COG0200	Binds to the 23S rRNA
Apre_1556	COG1841	ribosomal large subunit assembly
Apre_1557	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
Apre_1560	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
Apre_1561	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
Apre_1562	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
Apre_1563	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
Apre_1564	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
Apre_1565	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
Apre_1566	COG0255	Belongs to the universal ribosomal protein uL29 family
Apre_1567	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
Apre_1568	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
Apre_1569	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
Apre_1570	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
Apre_1571	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
Apre_1572	COG0089	rRNA binding
Apre_1573	COG0088	Forms part of the polypeptide exit tunnel
Apre_1574	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
Apre_1575	COG0051	transcription antitermination factor activity, RNA binding
Apre_1578	COG1757	Na H antiporter
Apre_1583	COG1455	protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity
Apre_1584	COG2723	6-phospho-beta-galactosidase activity
Apre_1585	COG1440	protein-N(PI)-phosphohistidine-lactose phosphotransferase system transporter activity
Apre_1586	COG1447	Phosphotransferase system cellobiose-specific component IIA
Apre_1588	COG0205	6-phosphofructokinase activity
Apre_1589	COG1114	Component of the transport system for branched-chain amino acids
Apre_1592	COG2211	Major facilitator Superfamily
Apre_1593	COG2211	Major facilitator Superfamily
Apre_1594	COG0673	inositol 2-dehydrogenase activity
Apre_1596	COG0673	inositol 2-dehydrogenase activity
Apre_1597	COG0673	inositol 2-dehydrogenase activity
Apre_1599	COG0800	Aldolase
Apre_1600	COG1904	glucuronate isomerase
Apre_1601	COG1312	Catalyzes the dehydration of D-mannonate
Apre_1602	COG0246	Mannitol dehydrogenase
Apre_1605	COG3875	lactate racemase activity
Apre_1606	COG2059	Chromate
Apre_1608	COG3250	beta-galactosidase activity
Apre_1611	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
Apre_1612	COG3090	Trap-type c4-dicarboxylate transport system, small permease component
Apre_1613	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
Apre_1614	COG1063	alcohol dehydrogenase
Apre_1617	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
Apre_1618	COG1879	ABC-type sugar transport system periplasmic component
Apre_1619	COG1172	Belongs to the binding-protein-dependent transport system permease family
Apre_1620	COG1129	ABC transporter
Apre_1621	COG1869	D-ribose catabolic process
Apre_1624	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
Apre_1625	COG2971	BadF BadG BcrA BcrD
Apre_1626	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
Apre_1632	COG2022	thiamine diphosphate biosynthetic process
Apre_1633	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
Apre_1636	COG0822	iron-sulfur transferase activity
Apre_1637	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
Apre_1638	COG0719	Fe-S assembly protein
Apre_1640	COG0396	ATPase activity
Apre_1641	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
Apre_1642	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
Apre_1643	COG3688	RNA-binding protein containing a PIN domain
Apre_1644	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
Apre_1645	COG0215	cysteine-tRNA ligase activity
Apre_1646	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)
Apre_1648	COG1164	Oligoendopeptidase f
Apre_1649	COG2309	aminopeptidase activity
Apre_1655	COG1476	TRANSCRIPTIONal
Apre_1656	COG0363	glucosamine-6-phosphate deaminase activity
Apre_1658	COG0166	Belongs to the GPI family
Apre_1662	COG0534	Mate efflux family protein
Apre_1664	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)
Apre_1667	COG1175	transmembrane transport
Apre_1669	COG5426	von Willebrand factor, type A
Apre_1671	COG3842	ATPase activity
Apre_1672	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
Apre_1674	COG0366	Alpha amylase catalytic
Apre_1675	COG3444	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
Apre_1676	COG0446	pyridine nucleotide-disulphide oxidoreductase
Apre_1677	COG0431	NADPH-dependent FMN reductase
Apre_1679	COG1846	Transcriptional regulator
Apre_1681	COG1297	OPT oligopeptide transporter protein
Apre_1682	COG1253	flavin adenine dinucleotide binding
Apre_1683	COG1757	Na H antiporter
Apre_1684	COG1394	ATPase activity, coupled to movement of substances
Apre_1685	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
Apre_1686	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
Apre_1687	COG1436	Produces ATP from ADP in the presence of a proton gradient across the membrane
Apre_1690	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
Apre_1691	COG1269	ATP hydrolysis coupled proton transport
Apre_1694	COG0438	transferase activity, transferring glycosyl groups
Apre_1695	COG1115	amino acid carrier protein
Apre_1696	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
Apre_1697	COG1950	PFAM Membrane protein of
Apre_1700	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
Apre_1701	COG1714	RDD family
Apre_1704	COG1606	tRNA processing
Apre_1705	COG1691	(AIR) carboxylase
Apre_1706	COG1641	Involved in the biosynthesis of a nickel-pincer cofactor ((SCS)Ni(II) pincer complex). Binds Ni(2 ), and functions in nickel delivery to pyridinium-3,5-bisthiocarboxylic acid mononucleotide (P2TMN), to form the mature cofactor. Is thus probably required for the activation of nickel-pincer cofactor- dependent enzymes
Apre_1707	COG1641	Involved in the biosynthesis of a nickel-pincer cofactor ((SCS)Ni(II) pincer complex). Binds Ni(2 ), and functions in nickel delivery to pyridinium-3,5-bisthiocarboxylic acid mononucleotide (P2TMN), to form the mature cofactor. Is thus probably required for the activation of nickel-pincer cofactor- dependent enzymes
Apre_1709	COG4139	cobalamin transport
Apre_1710	COG1120	ATPase activity
Apre_1717	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
Apre_1718	COG1846	Transcriptional regulator
Apre_1720	COG0492	ferredoxin-NADP+ reductase activity
Apre_1727	COG1475	DNA binding
Apre_1728	COG1192	Involved in chromosome partitioning
Apre_1729	COG1058	Belongs to the CinA family
Apre_1729	COG1546	Belongs to the CinA family
Apre_1731	COG0357	Ribosomal RNA small subunit methyltransferase G
Apre_1732	COG0445	tRNA wobble uridine modification
Apre_1733	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
Apre_1734	COG1283	sodium-dependent phosphate transmembrane transporter activity
Apre_1735	COG1847	R3H domain protein
Apre_1736	COG0706	membrane insertase activity
Apre_1737	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
Apre_1738	COG0594	ribonuclease P activity
Apre_1739	COG0230	Belongs to the bacterial ribosomal protein bL34 family
Apre_1743	COG1132	(ABC) transporter
Apre_1744	COG0515	serine threonine protein kinase
Apre_1745	COG1129	ABC transporter
Apre_1755	COG1136	(ABC) transporter
Apre_1757	COG2274	protein secretion by the type I secretion system
Apre_1761	COG3208	Thioesterase involved in non-ribosomal peptide biosynthesis
Apre_1763	COG1021	2,3-dihydroxybenzoate-AMP ligase
Apre_1764	COG2226	methyltransferase
Apre_1764	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
Apre_1764	COG3433	isochorismatase activity
Apre_1765	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
Apre_1765	COG3321	synthase
Apre_1765	COG3319	amino acid activation for nonribosomal peptide biosynthetic process
Apre_1765	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
Apre_1769	COG0444	Belongs to the ABC transporter superfamily
Apre_1770	COG4608	Belongs to the ABC transporter superfamily
Apre_1771	COG0747	negative chemotaxis
Apre_1773	COG1132	(ABC) transporter
Apre_1774	COG1132	(ABC) transporter
Apre_1777	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
Apre_1781	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
Apre_1783	COG2226	methyltransferase
Apre_1790	COG3708	Transcriptional regulator
Apre_1790	COG2207	Transcriptional regulator
Apre_1798	COG3708	Transcriptional regulator
Apre_1798	COG2207	Transcriptional regulator
Apre_1802	COG1484	DNA-dependent DNA replication
Apre_1822	COG0551	DNA topoisomerase type I activity
Apre_1822	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
Apre_1825	COG3344	reverse transcriptase
Apre_1830	COG3655	Transcriptional regulator
Apre_1845	COG1129	ABC transporter
Apre_1849	COG2197	response regulator