locus-tag	class	description
YH65_00005	COG0593	it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids
YH65_00010	COG0592	DNA-directed DNA polymerase activity
YH65_00015	COG0504	CTP synthase activity
YH65_00020	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
YH65_00020	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
YH65_00030	COG2906	2 iron, 2 sulfur cluster binding
YH65_00030	COG0822	iron-sulfur transferase activity
YH65_00030	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
YH65_00050	COG1194	a g-specific adenine glycosylase
YH65_00055	COG0544	peptidyl-prolyl cis-trans isomerase activity
YH65_00060	COG0740	serine-type endopeptidase activity
YH65_00065	COG0242	peptide deformylase activity
YH65_00070	COG0606	chelatase, subunit chli
YH65_00075	COG2855	membrane
YH65_00080	COG0583	DNA-binding transcription factor activity
YH65_00085	COG0746	molybdenum cofactor guanylyltransferase activity
YH65_00090	COG2814	Major facilitator Superfamily
YH65_00155	COG1450	Type ii and iii secretion system protein
YH65_00175	COG0784	Response regulator, receiver
YH65_00175	COG4191	Histidine kinase
YH65_00180	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
YH65_00185	COG0233	cytoplasmic translational termination
YH65_00190	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
YH65_00200	COG0670	Belongs to the BI1 family
YH65_00235	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
YH65_00265	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
YH65_00270	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
YH65_00290	COG0306	phosphate transporter
YH65_00295	COG0745	RESPONSE REGULATOR receiver
YH65_00300	COG0514	ATP-dependent DNA helicase (RecQ)
YH65_00305	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
YH65_00315	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
YH65_00320	COG0571	ribonuclease III activity
YH65_00325	COG0328	RNA-DNA hybrid ribonuclease activity
YH65_00335	COG0358	DNA primase activity
YH65_00340	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
YH65_00355	COG3706	GGDEF domain
YH65_00355	COG0745	RESPONSE REGULATOR receiver
YH65_00380	COG0648	Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin
YH65_00395	COG0318	PFAM AMP-dependent synthetase and ligase
YH65_00405	COG2190	(PTS) system
YH65_00410	COG1264	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
YH65_00410	COG2190	(PTS) system
YH65_00410	COG1263	PTS System
YH65_00425	COG1222	aaa ATPase
YH65_00440	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
YH65_00445	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
YH65_00450	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
YH65_00455	COG0649	NAD binding
YH65_00480	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
YH65_00485	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
YH65_00490	COG0839	Belongs to the complex I subunit 6 family
YH65_00495	COG0713	ATP synthesis coupled electron transport
YH65_00500	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
YH65_00510	COG1007	ATP synthesis coupled electron transport
YH65_00515	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)
YH65_00520	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
YH65_00525	COG0382	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate
YH65_00560	COG0194	GDP metabolic process
YH65_00565	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
YH65_00585	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
YH65_00590	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
YH65_00595	COG0126	phosphoglycerate kinase activity
YH65_00600	COG0149	triose-phosphate isomerase activity
YH65_00605	COG0195	Participates in both transcription termination and antitermination
YH65_00615	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
YH65_00620	COG2121	Domain of unknown function (DUF374)
YH65_00625	COG4974	Belongs to the 'phage' integrase family
YH65_00635	COG0037	tRNA processing
YH65_00640	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
YH65_00660	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
YH65_00665	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
YH65_00685	COG0745	RESPONSE REGULATOR receiver
YH65_00690	COG5002	protein histidine kinase activity
YH65_00705	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
YH65_00710	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
YH65_00740	COG0437	4 iron, 4 sulfur cluster binding
YH65_00755	COG0348	domain, Protein
YH65_00780	COG0840	transmembrane signaling receptor activity
YH65_00805	COG1136	(ABC) transporter
YH65_00820	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
YH65_00825	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
YH65_00830	COG0825	malonyl-CoA metabolic process
YH65_00835	COG0586	Pfam SNARE associated Golgi protein
YH65_00840	COG0513	Belongs to the DEAD box helicase family
YH65_00850	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
YH65_00855	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
YH65_00860	COG0227	Belongs to the bacterial ribosomal protein bL28 family
YH65_00865	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
YH65_00870	COG0135	phosphoribosylanthranilate isomerase activity
YH65_00885	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
YH65_00895	COG0556	nucleotide-excision repair
YH65_00900	COG1596	polysaccharide export
YH65_00945	COG0148	phosphopyruvate hydratase activity
YH65_00960	COG0569	domain protein
YH65_00960	COG0475	glutathione-regulated potassium exporter activity
YH65_00965	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
YH65_00970	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
YH65_00975	COG0717	Belongs to the dCTP deaminase family
YH65_00980	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
YH65_01045	COG1216	Glycosyl transferase, family 2
YH65_01055	COG1287	oligosaccharyl transferase activity
YH65_01070	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)
YH65_01085	COG0314	molybdopterin synthase activity
YH65_01090	COG0303	'Molybdopterin
YH65_01105	COG1331	Highly conserved protein containing a thioredoxin domain
YH65_01120	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
YH65_01125	COG0023	Translation Initiation Factor
YH65_01135	COG3347	Dehydrogenase
YH65_01135	COG1028	Short-chain dehydrogenase reductase Sdr
YH65_01145	COG3022	response to hydroperoxide
YH65_01170	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
YH65_01175	COG0267	Belongs to the bacterial ribosomal protein bL33 family
YH65_01190	COG0250	Participates in transcription elongation, termination and antitermination
YH65_01195	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
YH65_01200	COG0081	regulation of translation
YH65_01205	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
YH65_01210	COG0222	ribosome binding
YH65_01215	COG0085	RNA polymerase activity
YH65_01220	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
YH65_01225	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
YH65_01230	COG0049	tRNA binding
YH65_01235	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
YH65_01250	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
YH65_01255	COG2200	EAL domain
YH65_01255	COG2199	diguanylate cyclase activity
YH65_01260	COG0187	DNA topoisomerase II activity
YH65_01265	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
YH65_01275	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
YH65_01280	COG0575	Belongs to the CDS family
YH65_01290	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
YH65_01315	COG1053	succinate dehydrogenase
YH65_01320	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
YH65_01325	COG0432	Pfam Uncharacterised protein family UPF0047
YH65_01330	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
YH65_01335	COG0828	Belongs to the bacterial ribosomal protein bS21 family
YH65_01340	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
YH65_01340	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
YH65_01350	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
YH65_01365	COG0534	Mate efflux family protein
YH65_01375	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
YH65_01395	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
YH65_01400	COG2814	Major facilitator Superfamily
YH65_01405	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
YH65_01420	COG1473	amidohydrolase
YH65_01425	COG1442	glycosyl transferase family 8
YH65_01425	COG1216	Glycosyl transferase, family 2
YH65_01450	COG0175	sulfate reduction
YH65_01455	COG2895	sulfate adenylyltransferase (ATP) activity
YH65_01460	COG0529	Catalyzes the synthesis of activated sulfate
YH65_01465	COG0529	Catalyzes the synthesis of activated sulfate
YH65_01485	COG1091	dTDP-4-dehydrorhamnose reductase activity
YH65_01560	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
YH65_01565	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
YH65_01570	COG0305	Participates in initiation and elongation during chromosome replication
YH65_01580	COG1295	ribonuclease BN
YH65_01585	COG0277	FAD linked oxidase domain protein
YH65_01595	COG1196	nuclear chromosome segregation
YH65_01595	COG0741	lytic transglycosylase activity
YH65_01595	COG0739	heme binding
YH65_01615	COG2957	Belongs to the agmatine deiminase family
YH65_01620	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
YH65_01670	COG0725	ABC transporter, periplasmic molybdate-binding protein
YH65_01685	COG3842	ATPase activity
YH65_01695	COG1924	4 iron, 4 sulfur cluster binding
YH65_01700	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
YH65_01710	COG0159	tryptophan synthase activity
YH65_01715	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
YH65_01720	COG2255	four-way junction helicase activity
YH65_01725	COG0628	permease
YH65_01730	COG0745	RESPONSE REGULATOR receiver
YH65_01735	COG5002	protein histidine kinase activity
YH65_01735	COG5000	phosphorelay sensor kinase activity
YH65_01740	COG0247	lactate metabolic process
YH65_01745	COG0635	Involved in the biosynthesis of porphyrin-containing compound
YH65_01750	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
YH65_01755	COG0113	porphobilinogen synthase activity
YH65_01760	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
YH65_01780	COG2198	Histidine kinase
YH65_01780	COG0784	Response regulator, receiver
YH65_01780	COG2205	protein histidine kinase activity
YH65_01790	COG2197	response regulator
YH65_01800	COG0357	Ribosomal RNA small subunit methyltransferase G
YH65_01815	COG0705	Rhomboid family
YH65_01825	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
YH65_01830	COG0540	Belongs to the ATCase OTCase family
YH65_01835	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
YH65_01840	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
YH65_01855	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
YH65_01865	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
YH65_01870	COG0193	aminoacyl-tRNA hydrolase activity
YH65_01880	COG0019	diaminopimelate decarboxylase activity
YH65_01885	COG0077	Prephenate dehydratase
YH65_01885	COG1605	Chorismate mutase
YH65_01890	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
YH65_01900	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)
YH65_01905	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
YH65_01910	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
YH65_01915	COG0105	UTP biosynthetic process
YH65_01925	COG0333	Belongs to the bacterial ribosomal protein bL32 family
YH65_01930	COG0416	fatty acid biosynthetic process
YH65_01935	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
YH65_01940	COG1692	metallophosphoesterase
YH65_01945	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
YH65_01965	COG0495	leucyl-tRNA aminoacylation
YH65_01975	COG0285	dihydrofolate synthase activity
YH65_01980	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
YH65_02005	COG0714	Associated with various cellular activities
YH65_02025	COG2304	oxidoreductase activity
YH65_02050	COG0287	Prephenate dehydrogenase
YH65_02055	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
YH65_02060	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
YH65_02065	COG0280	phosphate acetyltransferase
YH65_02065	COG0857	belongs to the CobB CobQ family
YH65_02080	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
YH65_02085	COG0745	RESPONSE REGULATOR receiver
YH65_02095	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
YH65_02100	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
YH65_02105	COG0157	Belongs to the NadC ModD family
YH65_02110	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
YH65_02120	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
YH65_02130	COG0083	homoserine kinase activity
YH65_02140	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
YH65_02145	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
YH65_02150	COG0779	Required for maturation of 30S ribosomal subunits
YH65_02155	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
YH65_02155	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
YH65_02160	COG2226	methyltransferase
YH65_02165	COG1570	exodeoxyribonuclease VII activity
YH65_02175	COG0459	protein refolding
YH65_02180	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
YH65_02195	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)
YH65_02200	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)
YH65_02205	COG1183	phosphatidylcholine synthase activity
YH65_02210	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
YH65_02215	COG2264	protein methyltransferase activity
YH65_02220	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
YH65_02225	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
YH65_02260	COG0859	PFAM glycosyl transferase family 9
YH65_02265	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
YH65_02270	COG1132	(ABC) transporter
YH65_02275	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
YH65_02275	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
YH65_02295	COG0297	glycogen (starch) synthase activity
YH65_02300	COG0110	maltose O-acetyltransferase activity
YH65_02305	COG0438	transferase activity, transferring glycosyl groups
YH65_02310	COG1216	Glycosyl transferase, family 2
YH65_02320	COG1696	Membrane protein involved in D-alanine export
YH65_02375	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YH65_02380	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
YH65_02395	COG0166	Belongs to the GPI family
YH65_02400	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
YH65_02405	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
YH65_02420	COG2217	Heavy metal translocating P-type atpase
YH65_02430	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
YH65_02435	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
YH65_02440	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
YH65_02445	COG0180	Tryptophanyl-tRNA synthetase
YH65_02450	COG1160	GTP binding
YH65_02455	COG0668	transmembrane transport
YH65_02470	COG2877	3-deoxy-8-phosphooctulonate synthase activity
YH65_02475	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
YH65_02480	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
YH65_02485	COG1060	Radical SAM enzyme that catalyzes the addition of the adenosyl radical to the double bond of 3- (1- carboxyvinyl)oxy benzoate, leading to aminodeoxyfutalosine (AFL), a key intermediate in the formation of menaquinone (MK, vitamin K2) from chorismate
YH65_02495	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)
YH65_02500	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
YH65_02535	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
YH65_02555	COG0840	transmembrane signaling receptor activity
YH65_02560	COG0322	excinuclease ABC activity
YH65_02570	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
YH65_02580	COG0518	GMP synthase (glutamine-hydrolyzing) activity
YH65_02580	COG0519	Catalyzes the synthesis of GMP from XMP
YH65_02605	COG0019	diaminopimelate decarboxylase activity
YH65_02630	COG0326	Molecular chaperone. Has ATPase activity
YH65_02645	COG0151	Belongs to the GarS family
YH65_02650	COG1714	RDD family
YH65_02655	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
YH65_02660	COG0484	heat shock protein binding
YH65_02670	COG1185	polyribonucleotide nucleotidyltransferase activity
YH65_02675	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
YH65_02700	COG1592	Rubrerythrin
YH65_02705	COG0484	heat shock protein binding
YH65_02715	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
YH65_02720	COG2404	hydrolase activity, acting on ester bonds
YH65_02725	COG1959	2 iron, 2 sulfur cluster binding
YH65_02730	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
YH65_02735	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
YH65_02740	COG0443	Heat shock 70 kDa protein
YH65_02765	COG2205	protein histidine kinase activity
YH65_02770	COG0517	IMP dehydrogenase activity
YH65_02810	COG1331	Highly conserved protein containing a thioredoxin domain
YH65_02815	COG4232	protein-disulfide reductase activity
YH65_02820	COG2996	Protein conserved in bacteria
YH65_02870	COG2205	protein histidine kinase activity
YH65_02870	COG5002	protein histidine kinase activity
YH65_02870	COG0784	Response regulator, receiver
YH65_02875	COG0101	tRNA pseudouridine synthase activity
YH65_02885	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
YH65_02890	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
YH65_02900	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
YH65_02905	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
YH65_02910	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
YH65_02915	COG1832	CoA-binding protein
YH65_02925	COG0709	Synthesizes selenophosphate from selenide and ATP
YH65_02930	COG2603	Catalyzes the transfer of selenium from selenophosphate for conversion of 2-thiouridine to 2-selenouridine at the wobble position in tRNA
YH65_02935	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
YH65_02950	COG3852	Histidine kinase
YH65_02955	COG0028	Belongs to the TPP enzyme family
YH65_02960	COG0440	acetolactate synthase activity
YH65_02965	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
YH65_02975	COG1366	Belongs to the anti-sigma-factor antagonist family
YH65_02980	COG0646	methionine synthase
YH65_02980	COG1410	methionine synthase
YH65_02985	COG0488	(ABC) transporter
YH65_02990	COG0133	tryptophan synthase activity
YH65_02995	COG3869	Catalyzes the specific phosphorylation of arginine residues in
YH65_03010	COG2195	Cleaves the N-terminal amino acid of tripeptides
YH65_03020	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
YH65_03025	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
YH65_03040	COG0191	fructose-bisphosphate aldolase activity
YH65_03050	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
YH65_03105	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)
YH65_03110	COG0154	amidase activity
YH65_03115	COG0516	GMP reductase activity
YH65_03115	COG0517	IMP dehydrogenase activity
YH65_03125	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
YH65_03140	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
YH65_03150	COG0251	oxidation-reduction process
YH65_03155	COG0261	This protein binds to 23S rRNA in the presence of protein L20
YH65_03160	COG0211	Belongs to the bacterial ribosomal protein bL27 family
YH65_03170	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
YH65_03175	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
YH65_03180	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
YH65_03190	COG1192	Involved in chromosome partitioning
YH65_03195	COG1475	DNA binding
YH65_03205	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
YH65_03210	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
YH65_03215	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
YH65_03220	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
YH65_03225	COG0055	Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits
YH65_03230	COG0355	proton-transporting ATP synthase activity, rotational mechanism
YH65_03235	COG0811	peptide transport
YH65_03240	COG0848	biopolymer transport protein
YH65_03250	COG1355	regulation of microtubule-based process
YH65_03255	COG2078	PFAM AMMECR1 domain protein
YH65_03260	COG0823	Involved in the tonB-independent uptake of proteins
YH65_03275	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
YH65_03280	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
YH65_03285	COG1047	Peptidyl-prolyl cis-trans
YH65_03295	COG1773	rubredoxin
YH65_03300	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
YH65_03305	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
YH65_03310	COG0037	tRNA processing
YH65_03330	COG0564	pseudouridine synthase activity
YH65_03340	COG0220	tRNA (guanine-N7-)-methyltransferase activity
YH65_03345	COG2884	Cell division ATP-binding protein ftsE
YH65_03360	COG0528	UMP kinase activity
YH65_03365	COG1758	RNA polymerase activity
YH65_03370	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
YH65_03375	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)
YH65_03385	COG0860	N-Acetylmuramoyl-L-alanine amidase
YH65_03385	COG2247	cell wall binding repeat
YH65_03390	COG0860	N-Acetylmuramoyl-L-alanine amidase
YH65_03410	COG2199	diguanylate cyclase activity
YH65_03410	COG2200	EAL domain
YH65_03410	COG3287	FIST C domain
YH65_03430	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
YH65_03435	COG0066	3-isopropylmalate dehydratase activity
YH65_03440	COG0473	3-isopropylmalate dehydrogenase activity
YH65_03445	COG0788	formyltetrahydrofolate deformylase activity
YH65_03450	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
YH65_03460	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
YH65_03460	COG4121	Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34
YH65_03485	COG0134	indole-3-glycerol-phosphate synthase activity
YH65_03505	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
YH65_03520	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)
YH65_03525	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
YH65_03535	COG0137	argininosuccinate synthase activity
YH65_03545	COG0339	signal peptide processing
YH65_03550	COG0359	binds to the 23S rRNA
YH65_03555	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
YH65_03560	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
YH65_03585	COG4796	Type ii and iii secretion system protein
YH65_03610	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
YH65_03615	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
YH65_03625	COG1739	Uncharacterized protein family UPF0029
YH65_03635	COG0004	ammonium transporteR
YH65_03645	COG0004	ammonium transporteR
YH65_03675	COG2833	Protein of unknown function (DUF455)
YH65_03680	COG1663	tetraacyldisaccharide 4'-kinase activity
YH65_03685	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
YH65_03690	COG1858	cytochrome C peroxidase
YH65_03705	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
YH65_03715	COG0217	transcriptional regulatory protein
YH65_03720	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
YH65_03735	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
YH65_03740	COG0848	biopolymer transport protein
YH65_03745	COG0811	peptide transport
YH65_03755	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
YH65_03765	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
YH65_03790	COG0731	radical SAM domain protein
YH65_03810	COG2183	response to ionizing radiation
YH65_03830	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
YH65_03835	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
YH65_03840	COG0585	pseudouridine synthase activity
YH65_03860	COG1254	Belongs to the acylphosphatase family
YH65_03870	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
YH65_03875	COG3118	belongs to the thioredoxin family
YH65_03880	COG0745	RESPONSE REGULATOR receiver
YH65_03885	COG5002	protein histidine kinase activity
YH65_03905	COG2010	Cytochrome c
YH65_03915	COG3696	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
YH65_03930	COG1959	2 iron, 2 sulfur cluster binding
YH65_03955	COG0616	signal peptide processing
YH65_03960	COG0402	S-adenosylhomocysteine deaminase activity
YH65_03975	COG3287	FIST C domain
YH65_03975	COG2200	EAL domain
YH65_03975	COG2199	diguanylate cyclase activity
YH65_03980	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
YH65_03985	COG0006	proline dipeptidase activity
YH65_03990	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
YH65_03995	COG1419	protein localization to endoplasmic reticulum
YH65_04005	COG0482	sulfurtransferase activity
YH65_04015	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)
YH65_04020	COG0481	GTPase activity
YH65_04030	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
YH65_04075	COG1674	ftsk spoiiie
YH65_04075	COG1196	nuclear chromosome segregation
YH65_04080	COG1049	propionate catabolic process, 2-methylcitrate cycle
YH65_04090	COG0824	Thioesterase
YH65_04180	COG0123	including yeast histone deacetylase and acetoin utilization protein
YH65_04190	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
YH65_04205	COG0563	adenylate kinase activity
YH65_04210	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)
YH65_04240	COG0243	molybdopterin cofactor binding
YH65_04270	COG1142	4fe-4S ferredoxin, iron-sulfur binding domain protein
YH65_04275	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
YH65_04280	COG2223	nitrite transmembrane transporter activity
YH65_04290	COG2815	serine threonine protein kinase
YH65_04290	COG0515	serine threonine protein kinase
YH65_04310	COG4591	ABC-type transport system involved in lipoprotein release permease component
YH65_04315	COG0653	protein targeting
YH65_04325	COG1322	Protein conserved in bacteria
YH65_04345	COG0488	(ABC) transporter
YH65_04350	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
YH65_04355	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
YH65_04360	COG0684	Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions
YH65_04370	COG4865	methylaspartate mutase activity
YH65_04385	COG2226	methyltransferase
YH65_04405	COG1943	Transposase
YH65_04420	COG1671	Belongs to the UPF0178 family
YH65_04425	COG4895	conserved protein (DUF2196)
YH65_04435	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
YH65_04440	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
YH65_04450	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
YH65_04470	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
YH65_04480	COG1077	Cell shape determining protein MreB Mrl
YH65_04485	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
YH65_04490	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
YH65_04495	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
YH65_04500	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)
YH65_04505	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
YH65_04520	COG1757	Na H antiporter
YH65_04545	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
YH65_04550	COG3012	SEC-C Motif Domain Protein
YH65_04620	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
YH65_04630	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
YH65_04635	COG0561	phosphatase activity
YH65_04655	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
YH65_04660	COG0497	DNA recombination
YH65_04670	COG0084	hydrolase, TatD family'
YH65_04675	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
YH65_04680	COG0131	Imidazoleglycerol-phosphate dehydratase
YH65_04685	COG0561	phosphatase activity
YH65_04700	COG0218	Necessary for normal cell division and for the maintenance of normal septation
YH65_04715	COG0768	penicillin binding
YH65_04760	COG1108	ABC-type Mn2 Zn2 transport systems permease components
YH65_04765	COG1121	(ABC) transporter
YH65_04805	COG0688	phosphatidylethanolamine metabolic process
YH65_04815	COG0546	phosphoglycolate phosphatase activity
YH65_04830	COG2378	regulation of single-species biofilm formation
YH65_04845	COG3512	CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Functions as a ssRNA-specific endoribonuclease. Involved in the integration of spacer DNA into the CRISPR cassette
YH65_04885	COG1187	pseudouridine synthase activity
YH65_04920	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
YH65_04925	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
YH65_04930	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
YH65_04950	COG1234	tRNA 3'-trailer cleavage
YH65_04965	COG0500	methyltransferase
YH65_04970	COG0708	Exodeoxyribonuclease III
YH65_04990	COG0012	GTP binding
YH65_05005	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
YH65_05015	COG0133	tryptophan synthase activity
YH65_05030	COG0681	Belongs to the peptidase S26 family
YH65_05035	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
YH65_05050	COG0698	ribose 5-phosphate isomerase
YH65_05055	COG1994	Peptidase M50
YH65_05060	COG0681	Belongs to the peptidase S26 family
YH65_05065	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
YH65_05080	COG1278	Cold shock
YH65_05100	COG1272	protein, Hemolysin III
YH65_05105	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
YH65_05105	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
YH65_05110	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
YH65_05115	COG0284	orotidine-5'-phosphate decarboxylase activity
YH65_05130	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
YH65_05135	COG4716	Myosin-crossreactive antigen
YH65_05155	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
YH65_05155	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
YH65_05165	COG2827	Endonuclease containing a URI domain
YH65_05170	COG1022	Amp-dependent synthetase and ligase
YH65_05180	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
YH65_05185	COG1763	Mo-molybdopterin cofactor biosynthetic process
YH65_05200	COG0762	integral membrane protein
YH65_05205	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)
YH65_05210	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)
YH65_05235	COG1387	Histidinol phosphatase and related hydrolases of the PHP family
YH65_05235	COG1796	DNA polymerase
YH65_05240	COG2151	metal-sulfur cluster biosynthetic enzyme
YH65_05250	COG0719	Fe-S assembly protein
YH65_05255	COG0396	ATPase activity
YH65_05260	COG0719	Fe-S assembly protein
YH65_05265	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
YH65_05265	COG0301	tRNA thio-modification
YH65_05290	COG3300	MHYT domain
YH65_05290	COG5001	Diguanylate cyclase
YH65_05300	COG0525	valine-tRNA ligase activity
YH65_05315	COG0205	6-phosphofructokinase activity
YH65_05330	COG2259	Doxx family
YH65_05360	COG0047	phosphoribosylformylglycinamidine synthase activity
YH65_05365	COG1828	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
YH65_05370	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
YH65_05375	COG0793	Belongs to the peptidase S41A family
YH65_05385	COG0542	response to heat
YH65_05395	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
YH65_05400	COG4857	Catalyzes the phosphorylation of methylthioribose into methylthioribose-1-phosphate
YH65_05415	COG1704	LemA family
YH65_05435	COG0343	queuine tRNA-ribosyltransferase activity
YH65_05445	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
YH65_05455	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
YH65_05460	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
YH65_05490	COG4581	dead DEAH box helicase
YH65_05510	COG0531	amino acid
YH65_05525	COG3228	Belongs to the MtfA family
YH65_05530	COG0531	amino acid
YH65_05560	COG1227	inorganic diphosphatase activity
YH65_05565	COG0513	Belongs to the DEAD box helicase family
YH65_05575	COG0667	Aldo Keto reductase
YH65_05595	COG0671	phosphoesterase, PA-phosphatase related
YH65_05600	COG1368	sulfuric ester hydrolase activity
YH65_05615	COG2226	methyltransferase
YH65_05620	COG3647	Membrane
YH65_05625	COG2205	protein histidine kinase activity
YH65_05640	COG2081	HI0933 family
YH65_05650	COG0659	secondary active sulfate transmembrane transporter activity
YH65_05675	COG0521	Mo-molybdopterin cofactor biosynthetic process
YH65_05690	COG0300	oxidoreductase activity
YH65_05720	COG4948	Mandelate Racemase Muconate Lactonizing
YH65_05735	COG0742	ribosomal rna small subunit methyltransferase
YH65_05745	COG0590	tRNA wobble adenosine to inosine editing
YH65_05765	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
YH65_05780	COG0585	pseudouridine synthase activity
YH65_05805	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
YH65_05825	COG2048	Heterodisulfide reductase, subunit B
YH65_05840	COG3706	GGDEF domain
YH65_05840	COG0745	RESPONSE REGULATOR receiver
YH65_05855	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
YH65_05860	COG0508	dehydrogenase complex catalyzes the overall conversion of
YH65_05875	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
YH65_05880	COG0148	phosphopyruvate hydratase activity
YH65_05885	COG0574	Belongs to the PEP-utilizing enzyme family
YH65_05885	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)
YH65_05890	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
YH65_05895	COG1993	acr, cog1993
YH65_05900	COG2095	MarC family integral membrane protein
YH65_05935	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
YH65_05940	COG0588	phosphoglycerate mutase activity
YH65_05955	COG1914	H( )-stimulated, divalent metal cation uptake system
YH65_05960	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
YH65_05975	COG1573	uracil-dna glycosylase
YH65_05995	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
YH65_06000	COG2176	DNA-directed DNA polymerase activity
YH65_06010	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
YH65_06015	COG3162	membrane
YH65_06025	COG0745	RESPONSE REGULATOR receiver
YH65_06030	COG0840	transmembrane signaling receptor activity
YH65_06045	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
YH65_06045	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
YH65_06085	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
YH65_06100	COG3021	interspecies interaction between organisms
YH65_06105	COG0513	Belongs to the DEAD box helicase family
YH65_06110	COG4536	flavin adenine dinucleotide binding
YH65_06115	COG2239	Acts as a magnesium transporter
YH65_06125	COG0579	oxidoreductase
YH65_06140	COG1960	acyl-CoA dehydrogenase activity
YH65_06195	COG1881	PFAM PEBP family protein
YH65_06210	COG1252	NADH dehydrogenase
YH65_06235	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
YH65_06245	COG1055	Involved in arsenical resistance. Thought to form the channel of an arsenite pump
YH65_06255	COG3706	GGDEF domain
YH65_06255	COG5001	Diguanylate cyclase
YH65_06255	COG2203	Gaf domain
YH65_06255	COG4251	negative regulation of phosphorylation
YH65_06285	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
YH65_06285	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
YH65_06290	COG0745	RESPONSE REGULATOR receiver
YH65_06295	COG5002	protein histidine kinase activity
YH65_06355	COG0670	Belongs to the BI1 family
YH65_06370	COG0730	response to heat
YH65_06380	COG3258	Cytochrome c
YH65_06475	COG1866	Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA
YH65_06480	COG1883	Na -transporting methylmalonyl-CoA oxaloacetate decarboxylase, beta subunit
YH65_06500	COG1968	undecaprenyl-diphosphatase activity
YH65_06505	COG1132	(ABC) transporter
YH65_06510	COG0560	Phosphoserine phosphatase
YH65_06520	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
YH65_06530	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
YH65_06535	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
YH65_06540	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
YH65_06545	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
YH65_06555	COG1333	cytochrome c biogenesis protein
YH65_06555	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
YH65_06575	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
YH65_06575	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
YH65_06585	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
YH65_06615	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
YH65_06625	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
YH65_06630	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
YH65_06675	COG0784	Response regulator, receiver
YH65_06695	COG3008	intermembrane lipid transfer
YH65_06695	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
YH65_06700	COG2995	paraquat-inducible protein a
YH65_06715	COG3525	Glycosyl hydrolase, family 20, catalytic domain
YH65_06720	COG3876	Protein conserved in bacteria
YH65_06725	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
YH65_06740	COG2951	lytic endotransglycosylase activity
YH65_06745	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
YH65_06750	COG1355	regulation of microtubule-based process
YH65_06765	COG0471	metal ion transport
YH65_06770	COG0471	metal ion transport
YH65_06775	COG0022	dehydrogenase e1 component
YH65_06775	COG0508	dehydrogenase complex catalyzes the overall conversion of
YH65_06785	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
YH65_06790	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
YH65_06795	COG0508	dehydrogenase complex catalyzes the overall conversion of
YH65_06800	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
YH65_06805	COG0095	Lipoate-protein ligase
YH65_06810	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
YH65_06820	COG0617	tRNA 3'-terminal CCA addition
YH65_06825	COG1881	PFAM PEBP family protein
YH65_06845	COG1840	ABC-type Fe3 transport system, periplasmic component
YH65_06880	COG0778	Nitroreductase
YH65_06895	COG2020	methyltransferase activity
YH65_06905	COG0163	prenyltransferase activity
YH65_06910	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
YH65_06915	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
YH65_06920	COG0124	histidyl-tRNA synthetase
YH65_06935	COG1127	ABC transporter
YH65_06940	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
YH65_06945	COG1166	arginine decarboxylase activity
YH65_06950	COG1045	serine acetyltransferase
YH65_07000	COG0772	Belongs to the SEDS family
YH65_07055	COG1086	Polysaccharide biosynthesis protein
YH65_07060	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
YH65_07075	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
YH65_07110	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
YH65_07115	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
YH65_07120	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
YH65_07145	COG0789	Transcriptional regulator
YH65_07150	COG0484	heat shock protein binding
YH65_07155	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
YH65_07165	COG0046	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
YH65_07185	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
YH65_07195	COG0706	membrane insertase activity
YH65_07200	COG0594	ribonuclease P activity
YH65_07205	COG0230	Belongs to the bacterial ribosomal protein bL34 family
YH65_07225	COG0729	surface antigen
YH65_07230	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
YH65_07240	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
YH65_07245	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)
YH65_07255	COG0356	it plays a direct role in the translocation of protons across the membrane
YH65_07265	COG1137	ATPase activity
YH65_07270	COG0802	atpase or kinase
YH65_07275	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
YH65_07280	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
YH65_07290	COG2171	N-acyltransferase activity
YH65_07295	COG4206	TonB-dependent receptor
YH65_07305	COG1121	(ABC) transporter
YH65_07310	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
YH65_07320	COG2038	nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity
YH65_07330	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
YH65_07335	COG1492	cobalamin metabolic process
YH65_07350	COG0368	Joins adenosylcobinamide-GDP and alpha-ribazole to generate adenosylcobalamin (Ado-cobalamin). Also synthesizes adenosylcobalamin 5'-phosphate from adenosylcobinamide-GDP and alpha-ribazole 5'-phosphate
YH65_07375	COG1283	sodium-dependent phosphate transmembrane transporter activity
YH65_07385	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
YH65_07395	COG1643	Atp-dependent helicase
YH65_07410	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
YH65_07420	COG0067	glutamate synthase
YH65_07420	COG0069	glutamate synthase activity
YH65_07420	COG0070	glutamate synthase
YH65_07430	COG2824	Alkylphosphonate utilization operon protein PhnA
YH65_07435	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
YH65_07445	COG0714	Associated with various cellular activities
YH65_07470	COG1366	Belongs to the anti-sigma-factor antagonist family
YH65_07485	COG2252	PERMEase
YH65_07490	COG1001	Belongs to the metallo-dependent hydrolases superfamily. Adenine deaminase family
YH65_07495	COG3118	belongs to the thioredoxin family
YH65_07515	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
YH65_07525	COG3034	peptidoglycan biosynthetic process
YH65_07530	COG2989	Protein conserved in bacteria
YH65_07535	COG2081	HI0933 family
YH65_07545	COG0791	NLP P60 protein
YH65_07555	COG0632	four-way junction helicase activity
YH65_07565	COG0728	peptidoglycan biosynthetic process
YH65_07570	COG0215	cysteine-tRNA ligase activity
YH65_07580	COG3637	Has lipid A 3-O-deacylase activity. Hydrolyzes the ester bond at the 3 position of lipid A, a bioactive component of lipopolysaccharide (LPS), thereby releasing the primary fatty acyl moiety
YH65_07590	COG1442	glycosyl transferase family 8
YH65_07590	COG1216	Glycosyl transferase, family 2
YH65_07600	COG0167	dihydroorotate dehydrogenase activity
YH65_07605	COG0612	Peptidase, M16
YH65_07610	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
YH65_07615	COG1028	Short-chain dehydrogenase reductase Sdr
YH65_07620	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
YH65_07630	COG0370	Transporter of a GTP-driven Fe(2 ) uptake system
YH65_07635	COG1918	ferrous iron import across plasma membrane
YH65_07655	COG2132	Multicopper oxidase
YH65_07695	COG2132	Multicopper oxidase
YH65_07720	COG2226	methyltransferase
YH65_07740	COG0745	RESPONSE REGULATOR receiver
YH65_07745	COG0642	Histidine kinase
YH65_07755	COG0640	Transcriptional regulator
YH65_07780	COG0745	RESPONSE REGULATOR receiver
YH65_07785	COG5002	protein histidine kinase activity
YH65_07795	COG4232	protein-disulfide reductase activity
YH65_07840	COG2205	protein histidine kinase activity
YH65_07850	COG2132	Multicopper oxidase
YH65_07860	COG3746	phosphate-selective porin O and P
YH65_07865	COG0803	Belongs to the bacterial solute-binding protein 9 family
YH65_07880	COG0750	zinc metalloprotease
YH65_07885	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
YH65_07900	COG0450	alkyl hydroperoxide reductase
YH65_07905	COG0043	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity
YH65_07915	COG0181	hydroxymethylbilane synthase activity
YH65_07930	COG0442	prolyl-tRNA aminoacylation
YH65_07935	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
YH65_07940	COG0142	geranyltranstransferase activity
YH65_07955	COG0275	rRNA processing
YH65_07975	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
YH65_07985	COG0849	cell division
YH65_08000	COG0754	glutathionylspermidine amidase activity
YH65_08010	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
YH65_08035	COG0501	Belongs to the peptidase M48B family
YH65_08045	COG0500	methyltransferase
YH65_08060	COG1418	mRNA catabolic process
YH65_08070	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
YH65_08075	COG0552	protein localization to endoplasmic reticulum
YH65_08085	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
YH65_08090	COG0736	holo-[acyl-carrier-protein] synthase activity
YH65_08110	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
YH65_08130	COG2337	Toxic component of a toxin-antitoxin (TA) module
YH65_08145	COG0243	molybdopterin cofactor binding
YH65_08215	COG0737	Belongs to the 5'-nucleotidase family
YH65_08245	COG1013	pyruvate-flavodoxin oxidoreductase activity
YH65_08250	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
YH65_08250	COG0674	pyruvate-flavodoxin oxidoreductase activity
YH65_08260	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
YH65_08265	COG0045	succinate-CoA ligase (ADP-forming) activity
YH65_08270	COG0114	fumarate hydratase activity
YH65_08285	COG0039	L-malate dehydrogenase activity
YH65_08290	COG0039	L-malate dehydrogenase activity
YH65_08305	COG0587	DNA-directed DNA polymerase activity
YH65_08315	COG0693	protein deglycase activity
YH65_08320	COG0492	ferredoxin-NADP+ reductase activity
YH65_08350	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
YH65_08355	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
YH65_08375	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
YH65_08380	COG1185	polyribonucleotide nucleotidyltransferase activity
YH65_08380	COG0539	negative regulation of cytoplasmic translation
YH65_08385	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
YH65_08390	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
YH65_08395	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
YH65_08395	COG0072	phenylalanine-tRNA ligase activity
YH65_08400	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
YH65_08405	COG0537	adenosine 5'-monophosphoramidase activity
YH65_08410	COG0165	Argininosuccinate lyase
YH65_08450	COG0512	Glutamine amidotransferase of anthranilate synthase
YH65_08455	COG1060	Radical SAM enzyme that catalyzes the addition of the adenosyl radical to the double bond of 3- (1- carboxyvinyl)oxy benzoate, leading to aminodeoxyfutalosine (AFL), a key intermediate in the formation of menaquinone (MK, vitamin K2) from chorismate
YH65_08460	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
YH65_08465	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
YH65_08475	COG3840	Part of the ABC transporter complex ThiBPQ involved in thiamine import. Responsible for energy coupling to the transport system
YH65_08485	COG4143	(ABC) transporter
YH65_08495	COG0351	phosphomethylpyrimidine kinase
YH65_08500	COG0352	thiamine-phosphate diphosphorylase activity
YH65_08505	COG2022	thiamine diphosphate biosynthetic process
YH65_08520	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
YH65_08525	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
YH65_08540	COG0489	protein tyrosine kinase activity
YH65_08545	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
YH65_08545	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
YH65_08550	COG0745	RESPONSE REGULATOR receiver
YH65_08555	COG2046	Belongs to the sulfate adenylyltransferase family
YH65_08560	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
YH65_08565	COG1160	GTP binding
YH65_08575	COG0280	phosphate acetyltransferase
YH65_08575	COG0281	malic enzyme
YH65_08630	COG1331	Highly conserved protein containing a thioredoxin domain
YH65_08660	COG1331	Highly conserved protein containing a thioredoxin domain
YH65_08690	COG1331	Highly conserved protein containing a thioredoxin domain
YH65_08710	COG0737	Belongs to the 5'-nucleotidase family
YH65_08735	COG5002	protein histidine kinase activity
YH65_08740	COG0745	RESPONSE REGULATOR receiver
YH65_08755	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
YH65_08760	COG0642	Histidine kinase
YH65_08770	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
YH65_08785	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)
YH65_08790	COG1393	Belongs to the ArsC family
YH65_08810	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
YH65_08815	COG2951	lytic endotransglycosylase activity
YH65_08820	COG0475	glutathione-regulated potassium exporter activity
YH65_08825	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
YH65_08835	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
YH65_08870	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
YH65_08875	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)
YH65_08890	COG3200	phospho-2-dehydro-3-deoxyheptonate aldolase
YH65_08895	COG2226	methyltransferase
YH65_08905	COG0196	riboflavin kinase activity
YH65_08915	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
YH65_08925	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
YH65_08940	COG0527	aspartate kinase activity
YH65_08945	COG0494	nUDIX hydrolase
YH65_08950	COG0635	Involved in the biosynthesis of porphyrin-containing compound
YH65_08955	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
YH65_08960	COG0805	protein transport
YH65_08965	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
YH65_08980	COG4999	Histidine kinase
YH65_08980	COG3437	response regulator, receiver
YH65_08980	COG2205	protein histidine kinase activity
YH65_08980	COG3850	Histidine kinase
YH65_08985	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
YH65_08990	COG1472	Belongs to the glycosyl hydrolase 3 family
YH65_08995	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
YH65_09000	COG0758	DNA mediated transformation
YH65_09015	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
YH65_09040	COG1592	Rubrerythrin
YH65_09060	COG0501	Belongs to the peptidase M48B family
YH65_09065	COG0557	exoribonuclease II activity
YH65_09070	COG1466	dna polymerase III delta subunit
YH65_09075	COG0360	Binds together with S18 to 16S ribosomal RNA
YH65_09080	COG0629	single-stranded DNA binding
YH65_09085	COG0238	Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
YH65_09095	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
YH65_09100	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
YH65_09110	COG4974	Belongs to the 'phage' integrase family
YH65_09125	COG1193	negative regulation of DNA recombination
YH65_09140	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
YH65_09145	COG1053	succinate dehydrogenase
YH65_09155	COG0563	adenylate kinase activity
YH65_09180	COG2027	D-alanyl-D-alanine carboxypeptidase
YH65_09185	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
YH65_09200	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
YH65_09205	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
YH65_09210	COG1862	Preprotein translocase
YH65_09215	COG0815	Transfers the fatty acyl group on membrane lipoproteins
YH65_09225	COG0418	dihydroorotase activity
YH65_09240	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
YH65_09250	COG0583	DNA-binding transcription factor activity
YH65_09260	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
YH65_09265	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
YH65_09275	COG0071	Belongs to the small heat shock protein (HSP20) family
YH65_09290	COG4628	conserved protein (DUF2132)
YH65_09295	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
YH65_09310	COG0335	large ribosomal subunit rRNA binding
YH65_09315	COG0336	Belongs to the RNA methyltransferase TrmD family
YH65_09320	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
YH65_09325	COG1837	Belongs to the UPF0109 family
YH65_09330	COG0228	four-way junction DNA binding
YH65_09335	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
YH65_09340	COG0564	pseudouridine synthase activity
YH65_09345	COG1872	DUF167
YH65_09355	COG1519	Transferase
YH65_09365	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
YH65_09370	COG0752	glycyl-tRNA synthetase alpha subunit
YH65_09385	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
YH65_09395	COG1387	Histidinol phosphatase and related hydrolases of the PHP family
YH65_09400	COG0174	glutamine synthetase
YH65_09415	COG0156	8-amino-7-oxononanoate synthase activity
YH65_09420	COG0424	maF-like protein
YH65_09430	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
YH65_09445	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)
YH65_09450	COG0772	Belongs to the SEDS family
YH65_09455	COG0768	penicillin binding
YH65_09460	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
YH65_09465	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
YH65_09470	COG1136	(ABC) transporter
YH65_09475	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
YH65_09480	COG0052	Belongs to the universal ribosomal protein uS2 family
YH65_09485	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
YH65_09515	COG1012	belongs to the aldehyde dehydrogenase family
YH65_09550	COG3043	anaerobic respiration
YH65_09555	COG0348	domain, Protein
YH65_09560	COG0437	4 iron, 4 sulfur cluster binding
YH65_09565	COG0243	molybdopterin cofactor binding
YH65_09570	COG2151	metal-sulfur cluster biosynthetic enzyme
YH65_09585	COG1648	precorrin-2 dehydrogenase activity
YH65_09585	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
YH65_09600	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
YH65_09630	COG0842	Transport permease protein
YH65_09640	COG1129	ABC transporter
YH65_09640	COG0842	Transport permease protein
YH65_09675	COG1309	transcriptional regulator
YH65_09680	COG1858	cytochrome C peroxidase
YH65_09685	COG0300	oxidoreductase activity
YH65_09690	COG2010	Cytochrome c
YH65_09700	COG0300	oxidoreductase activity
YH65_09705	COG0038	chloride channel
YH65_09710	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
YH65_09715	COG0649	NAD binding
YH65_09720	COG0651	ATP synthesis coupled electron transport
YH65_09735	COG0651	ATP synthesis coupled electron transport
YH65_09760	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
YH65_09770	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
YH65_09785	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
YH65_09790	COG0569	domain protein
YH65_09805	COG3256	nitric oxide reductase
YH65_09845	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
YH65_09845	COG0140	phosphoribosyl-ATP diphosphatase activity
YH65_09850	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
YH65_09855	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
YH65_09860	COG0492	ferredoxin-NADP+ reductase activity
YH65_09865	COG3118	belongs to the thioredoxin family
YH65_09875	COG0792	nuclease activity
YH65_09900	COG3383	formate dehydrogenase (NAD+) activity
YH65_09910	COG1666	GTP binding
YH65_09920	COG0460	homoserine dehydrogenase
YH65_09925	COG0436	Aminotransferase
YH65_09940	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
YH65_09945	COG0254	rRNA binding
YH65_09950	COG1385	rRNA (uridine-N3-)-methyltransferase activity
YH65_09960	COG0303	'Molybdopterin
YH65_09965	COG0720	synthase
YH65_09985	COG2814	Major facilitator Superfamily
YH65_09995	COG0602	queuosine metabolic process
YH65_10000	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
YH65_10005	COG2857	Cytochrome c1
YH65_10015	COG0723	plastoquinol--plastocyanin reductase activity
YH65_10025	COG0445	tRNA wobble uridine modification
YH65_10050	COG1854	S-ribosylhomocysteine lyase activity
YH65_10055	COG1013	pyruvate-flavodoxin oxidoreductase activity
YH65_10060	COG0674	pyruvate-flavodoxin oxidoreductase activity
YH65_10065	COG1144	Oxidoreductase
YH65_10070	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
YH65_10085	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
YH65_10105	COG0242	peptide deformylase activity
YH65_10115	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
YH65_10120	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
YH65_10125	COG1074	ATP-dependent DNA helicase activity
YH65_10165	COG3278	Belongs to the heme-copper respiratory oxidase family
YH65_10170	COG1181	Belongs to the D-alanine--D-alanine ligase family
YH65_10175	COG0505	Belongs to the CarA family
YH65_10185	COG0104	Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP
YH65_10190	COG3705	Required for the first step of histidine biosynthesis. May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
YH65_10195	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
YH65_10260	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
YH65_10265	COG2107	Catalyzes the conversion of cyclic dehypoxanthine futalosine (cyclic DHFL) into 1,4-dihydroxy-6-naphthoate, a step in the biosynthesis of menaquinone (MK, vitamin K2)
YH65_10270	COG0812	UDP-N-acetylmuramate dehydrogenase activity
YH65_10295	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
YH65_10310	COG0348	domain, Protein
YH65_10320	COG0315	cyclic pyranopterin monophosphate synthase activity
YH65_10340	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
YH65_10345	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
YH65_10350	COG0268	Binds directly to 16S ribosomal RNA
YH65_10355	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
YH65_10460	COG0232	Belongs to the dGTPase family. Type 2 subfamily
YH65_10465	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
YH65_10470	COG0291	Belongs to the bacterial ribosomal protein bL35 family
YH65_10475	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
YH65_10535	COG0790	COG0790 FOG TPR repeat, SEL1 subfamily
YH65_10555	COG0051	transcription antitermination factor activity, RNA binding
YH65_10560	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
YH65_10565	COG0088	Forms part of the polypeptide exit tunnel
YH65_10570	COG0089	rRNA binding
YH65_10575	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
YH65_10580	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
YH65_10585	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
YH65_10590	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
YH65_10595	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
YH65_10600	COG0255	Belongs to the universal ribosomal protein uL29 family
YH65_10605	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
YH65_10610	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
YH65_10615	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
YH65_10620	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
YH65_10625	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
YH65_10630	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
YH65_10635	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
YH65_10640	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
YH65_10645	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
YH65_10650	COG0200	Binds to the 23S rRNA
YH65_10655	COG0201	protein transport
YH65_10660	COG0024	Methionine aminopeptidase
YH65_10665	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
YH65_10670	COG0257	Belongs to the bacterial ribosomal protein bL36 family
YH65_10675	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
YH65_10680	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
YH65_10685	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
YH65_10690	COG0202	RNA polymerase activity
YH65_10695	COG0203	ribosomal protein L17
YH65_10715	COG2259	Doxx family
YH65_10745	COG2081	HI0933 family
YH65_10750	COG0011	TIGRFAM Protein of
YH65_10760	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
YH65_10765	COG1115	amino acid carrier protein
YH65_10825	COG0582	viral genome integration into host DNA
YH65_10840	COG1187	pseudouridine synthase activity
YH65_10845	COG0517	IMP dehydrogenase activity
YH65_10845	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
YH65_10855	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
YH65_10860	COG0107	imidazoleglycerol-phosphate synthase activity
YH65_10870	COG0820	rRNA (adenine-C2-)-methyltransferase activity
YH65_10875	COG0564	pseudouridine synthase activity
YH65_10880	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
YH65_10885	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
YH65_10890	COG0372	Belongs to the citrate synthase family
YH65_10895	COG3123	guanosine phosphorylase activity
YH65_10905	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
YH65_10915	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
YH65_10925	COG0387	Pfam Sodium calcium exchanger
YH65_10935	COG0714	Associated with various cellular activities
YH65_10945	COG2304	oxidoreductase activity
YH65_10960	COG0237	dephospho-CoA kinase activity
YH65_10965	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
YH65_10985	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)
YH65_10990	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
YH65_10995	COG0129	dihydroxy-acid dehydratase activity
YH65_11020	COG0582	viral genome integration into host DNA
YH65_11105	COG1451	nucleotide metabolic process
YH65_11120	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