locus-tag	class	description
RYU24_00010	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
RYU24_00020	COG0592	DNA-directed DNA polymerase activity
RYU24_00040	COG0187	DNA topoisomerase II activity
RYU24_00060	COG1063	alcohol dehydrogenase
RYU24_00070	COG0488	(ABC) transporter
RYU24_00180	COG0657	acetylesterase activity
RYU24_00210	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
RYU24_00220	COG2814	Major facilitator Superfamily
RYU24_00230	COG2814	Major facilitator Superfamily
RYU24_00260	COG0666	response to abiotic stimulus
RYU24_00270	COG0693	protein deglycase activity
RYU24_00290	COG1012	belongs to the aldehyde dehydrogenase family
RYU24_00300	COG0733	neurotransmitter:sodium symporter activity
RYU24_00310	COG0428	transporter
RYU24_00340	COG0129	dihydroxy-acid dehydratase activity
RYU24_00350	COG0129	dihydroxy-acid dehydratase activity
RYU24_00400	COG2233	PERMEase
RYU24_00430	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
RYU24_00490	COG0675	Transposase, IS605 OrfB family
RYU24_00530	COG2814	Major facilitator Superfamily
RYU24_00540	COG0656	L-ascorbic acid biosynthetic process
RYU24_00550	COG0583	DNA-binding transcription factor activity
RYU24_00560	COG1064	alcohol dehydrogenase
RYU24_00570	COG2818	Glycosylase
RYU24_00590	COG0739	heme binding
RYU24_00600	COG1194	a g-specific adenine glycosylase
RYU24_00680	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
RYU24_00690	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
RYU24_00730	COG0438	transferase activity, transferring glycosyl groups
RYU24_00740	COG0438	transferase activity, transferring glycosyl groups
RYU24_00750	COG0438	transferase activity, transferring glycosyl groups
RYU24_00770	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
RYU24_00790	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
RYU24_00830	COG1216	Glycosyl transferase, family 2
RYU24_00860	COG0438	transferase activity, transferring glycosyl groups
RYU24_00880	COG1086	Polysaccharide biosynthesis protein
RYU24_00900	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
RYU24_00920	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
RYU24_00930	COG1210	Utp--glucose-1-phosphate uridylyltransferase
RYU24_00960	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
RYU24_00980	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
RYU24_01050	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
RYU24_01070	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
RYU24_01080	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
RYU24_01100	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
RYU24_01150	COG4628	conserved protein (DUF2132)
RYU24_01170	COG3540	Alkaline phosphatase
RYU24_01200	COG0737	Belongs to the 5'-nucleotidase family
RYU24_01230	COG0438	transferase activity, transferring glycosyl groups
RYU24_01300	COG3293	Transposase
RYU24_01330	COG1974	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair
RYU24_01340	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
RYU24_01340	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)
RYU24_01350	COG1105	Belongs to the carbohydrate kinase PfkB family
RYU24_01360	COG3925	protein-phosphocysteine-D-fructose-phosphotransferase system transporter activity
RYU24_01360	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
RYU24_01360	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
RYU24_01380	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
RYU24_01390	COG3550	peptidyl-serine autophosphorylation
RYU24_01440	COG4372	Transposase
RYU24_01450	COG0753	catalase activity
RYU24_01480	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
RYU24_01500	COG3756	Protein conserved in bacteria
RYU24_01570	COG1192	Involved in chromosome partitioning
RYU24_01600	COG0586	Pfam SNARE associated Golgi protein
RYU24_01610	COG0519	Catalyzes the synthesis of GMP from XMP
RYU24_01610	COG0518	GMP synthase (glutamine-hydrolyzing) activity
RYU24_01620	COG1715	Restriction endonuclease
RYU24_01630	COG3706	GGDEF domain
RYU24_01640	COG3706	GGDEF domain
RYU24_01760	COG0534	Mate efflux family protein
RYU24_01770	COG0436	Aminotransferase
RYU24_01810	COG2837	iron assimilation
RYU24_01830	COG1683	Conserved Protein
RYU24_01840	COG1108	ABC-type Mn2 Zn2 transport systems permease components
RYU24_01850	COG1121	(ABC) transporter
RYU24_01950	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
RYU24_01990	COG1012	belongs to the aldehyde dehydrogenase family
RYU24_02020	COG0386	Belongs to the glutathione peroxidase family
RYU24_02030	COG0386	Belongs to the glutathione peroxidase family
RYU24_02040	COG0697	spore germination
RYU24_02060	COG0758	DNA mediated transformation
RYU24_02110	COG2814	Major facilitator Superfamily
RYU24_02150	COG0477	Major facilitator Superfamily
RYU24_02160	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
RYU24_02170	COG3757	hydrolase, family 25
RYU24_02210	COG1253	flavin adenine dinucleotide binding
RYU24_02230	COG2860	membrane
RYU24_02240	COG0477	Major facilitator Superfamily
RYU24_02260	COG0318	PFAM AMP-dependent synthetase and ligase
RYU24_02290	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
RYU24_02320	COG0606	chelatase, subunit chli
RYU24_02470	COG0347	Belongs to the P(II) protein family
RYU24_02480	COG0004	ammonium transporteR
RYU24_02500	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
RYU24_02500	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
RYU24_02530	COG0586	Pfam SNARE associated Golgi protein
RYU24_02570	COG0795	lipopolysaccharide-transporting ATPase activity
RYU24_02580	COG0795	lipopolysaccharide-transporting ATPase activity
RYU24_02590	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
RYU24_02600	COG0793	Belongs to the peptidase S41A family
RYU24_02620	COG2205	protein histidine kinase activity
RYU24_02630	COG2197	response regulator
RYU24_02640	COG1686	Belongs to the peptidase S11 family
RYU24_02650	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
RYU24_02670	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
RYU24_02680	COG4974	Belongs to the 'phage' integrase family
RYU24_02730	COG0772	Belongs to the SEDS family
RYU24_02740	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)
RYU24_02750	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
RYU24_02760	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
RYU24_02770	COG0494	nUDIX hydrolase
RYU24_02800	COG1538	Outer membrane efflux protein
RYU24_02820	COG1132	(ABC) transporter
RYU24_02840	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
RYU24_02910	COG0497	DNA recombination
RYU24_02920	COG3123	guanosine phosphorylase activity
RYU24_02930	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
RYU24_02950	COG0237	dephospho-CoA kinase activity
RYU24_02990	COG0149	triose-phosphate isomerase activity
RYU24_03010	COG0779	Required for maturation of 30S ribosomal subunits
RYU24_03020	COG0195	Participates in both transcription termination and antitermination
RYU24_03040	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
RYU24_03050	COG1320	monovalent cation:proton antiporter activity
RYU24_03060	COG2212	antiporter activity
RYU24_03070	COG1863	multisubunit Na H antiporter MnhE subunit
RYU24_03080	COG0651	ATP synthesis coupled electron transport
RYU24_03090	COG1006	Multisubunit Na H antiporter MnhC subunit
RYU24_03100	COG2111	Na H antiporter
RYU24_03100	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
RYU24_03130	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
RYU24_03140	COG4221	oxidoreductase activity
RYU24_03160	COG0488	(ABC) transporter
RYU24_03180	COG3293	Transposase
RYU24_03290	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
RYU24_03330	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
RYU24_03340	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
RYU24_03350	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
RYU24_03360	COG2226	methyltransferase
RYU24_03460	COG0070	glutamate synthase
RYU24_03460	COG0069	glutamate synthase activity
RYU24_03460	COG0067	glutamate synthase
RYU24_03470	COG0493	'glutamate synthase
RYU24_03480	COG1704	LemA family
RYU24_03590	COG4969	Belongs to the N-Me-Phe pilin family
RYU24_03610	COG3307	-O-antigen
RYU24_03660	COG0675	Transposase, IS605 OrfB family
RYU24_03670	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
RYU24_03680	COG1758	RNA polymerase activity
RYU24_03690	COG0194	GDP metabolic process
RYU24_03710	COG4969	Belongs to the N-Me-Phe pilin family
RYU24_03780	COG0228	four-way junction DNA binding
RYU24_03790	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
RYU24_03810	COG0335	large ribosomal subunit rRNA binding
RYU24_03830	COG1075	acetyltransferases and hydrolases with the alpha beta hydrolase fold
RYU24_03840	COG5380	lipid catabolic process
RYU24_03850	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
RYU24_03930	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
RYU24_03940	COG0277	FAD linked oxidase domain protein
RYU24_03980	COG2814	Major facilitator Superfamily
RYU24_03990	COG1289	transmembrane transporter activity
RYU24_04010	COG0628	permease
RYU24_04050	COG2226	methyltransferase
RYU24_04080	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
RYU24_04090	COG0254	rRNA binding
RYU24_04100	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
RYU24_04120	COG0534	Mate efflux family protein
RYU24_04140	COG0635	Involved in the biosynthesis of porphyrin-containing compound
RYU24_04160	COG1278	Cold shock
RYU24_04170	COG1960	acyl-CoA dehydrogenase activity
RYU24_04200	COG0408	coproporphyrinogen oxidase activity
RYU24_04210	COG0635	Involved in the biosynthesis of porphyrin-containing compound
RYU24_04230	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)
RYU24_04250	COG0513	Belongs to the DEAD box helicase family
RYU24_04260	COG1127	ABC transporter
RYU24_04270	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
RYU24_04280	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
RYU24_04290	COG2854	intermembrane phospholipid transfer
RYU24_04310	COG0598	Magnesium transport protein CorA
RYU24_04340	COG1040	competence protein
RYU24_04350	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)
RYU24_04380	COG2937	Belongs to the GPAT DAPAT family
RYU24_04390	COG1946	Acyl-CoA thioesterase
RYU24_04400	COG1301	dicarboxylic acid transport
RYU24_04450	COG1959	2 iron, 2 sulfur cluster binding
RYU24_04470	COG0433	COG0433 Predicted ATPase
RYU24_04480	COG0626	cystathionine gamma-synthase activity
RYU24_04510	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
RYU24_04520	COG0088	Forms part of the polypeptide exit tunnel
RYU24_04550	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
RYU24_04640	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
RYU24_04650	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
RYU24_04660	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
RYU24_04680	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
RYU24_04720	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
RYU24_04740	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
RYU24_04750	COG0202	RNA polymerase activity
RYU24_04760	COG0203	ribosomal protein L17
RYU24_04770	COG2072	flavoprotein involved in K transport
RYU24_04780	COG1960	acyl-CoA dehydrogenase activity
RYU24_04790	COG2938	An FAD assembly protein, which accelerates covalent attachment of the cofactor into other proteins. Plays an essential role in the assembly of succinate dehydrogenase (SDH, respiratory complex II), an enzyme complex that is a component of both the tricarboxylic acid cycle and the electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol. Required for flavinylation (covalent attachment of FAD) of the flavoprotein subunit SdhA of SDH
RYU24_04840	COG0697	spore germination
RYU24_04860	COG3529	nucleic-acid-binding protein containing a Zn-ribbon domain
RYU24_04870	COG0339	signal peptide processing
RYU24_04890	COG0557	exoribonuclease II activity
RYU24_04930	COG0179	Fumarylacetoacetate (FAA) hydrolase
RYU24_04950	COG1295	ribonuclease BN
RYU24_05050	COG1702	phosphate starvation-inducible protein PhoH
RYU24_05060	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
RYU24_05070	COG0739	heme binding
RYU24_05070	COG0741	lytic transglycosylase activity
RYU24_05070	COG1196	nuclear chromosome segregation
RYU24_05150	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
RYU24_05160	COG1183	phosphatidylcholine synthase activity
RYU24_05180	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
RYU24_05230	COG1607	acyl-coa hydrolase
RYU24_05290	COG2350	Protein conserved in bacteria
RYU24_05320	COG3781	membrane
RYU24_05330	COG2003	Belongs to the UPF0758 family
RYU24_05340	COG0452	Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine
RYU24_05360	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
RYU24_05590	COG4626	Terminase
RYU24_05590	COG1802	Transcriptional regulator
RYU24_05830	COG2814	Major facilitator Superfamily
RYU24_05890	COG3622	Belongs to the hyi family
RYU24_05900	COG2084	Dehydrogenase
RYU24_05920	COG5002	protein histidine kinase activity
RYU24_05920	COG2205	protein histidine kinase activity
RYU24_05920	COG0784	Response regulator, receiver
RYU24_05930	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
RYU24_05960	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
RYU24_05980	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
RYU24_06000	COG1862	Preprotein translocase
RYU24_06040	COG1704	LemA family
RYU24_06060	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
RYU24_06070	COG0318	PFAM AMP-dependent synthetase and ligase
RYU24_06170	COG0625	glutathione transferase activity
RYU24_06190	COG1238	metal cluster binding
RYU24_06250	COG0072	phenylalanine-tRNA ligase activity
RYU24_06300	COG0248	Ppx GppA phosphatase
RYU24_06320	COG0037	tRNA processing
RYU24_06400	COG1764	response to oxidative stress
RYU24_06410	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
RYU24_06500	COG2969	positive regulation of protein catabolic process
RYU24_06510	COG0625	glutathione transferase activity
RYU24_06530	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
RYU24_06540	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
RYU24_06560	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)
RYU24_06570	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
RYU24_06580	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
RYU24_06660	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
RYU24_06690	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
RYU24_06700	COG1408	metallophosphoesterase
RYU24_06720	COG0477	Major facilitator Superfamily
RYU24_06740	COG1272	protein, Hemolysin III
RYU24_06780	COG1024	Enoyl-CoA hydratase
RYU24_06780	COG1250	3-hydroxyacyl-CoA dehydrogenase
RYU24_06790	COG0183	Belongs to the thiolase family
RYU24_06800	COG2207	Transcriptional regulator
RYU24_06810	COG1804	L-carnitine dehydratase bile acid-inducible protein F
RYU24_06820	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
RYU24_06850	COG0183	Belongs to the thiolase family
RYU24_06890	COG0833	amino acid
RYU24_06910	COG2233	PERMEase
RYU24_06920	COG1217	gtp-binding protein TYPA
RYU24_06970	COG1902	pentaerythritol trinitrate reductase activity
RYU24_07000	COG0354	folic acid binding
RYU24_07010	COG2132	Multicopper oxidase
RYU24_07020	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
RYU24_07100	COG0564	pseudouridine synthase activity
RYU24_07160	COG2824	Alkylphosphonate utilization operon protein PhnA
RYU24_07200	COG0819	Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway
RYU24_07200	COG0351	phosphomethylpyrimidine kinase
RYU24_07200	COG0352	thiamine-phosphate diphosphorylase activity
RYU24_07260	COG3152	Membrane
RYU24_07280	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
RYU24_07320	COG0745	RESPONSE REGULATOR receiver
RYU24_07330	COG2205	protein histidine kinase activity
RYU24_07350	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
RYU24_07390	COG1894	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain
RYU24_07420	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
RYU24_07430	COG0839	Belongs to the complex I subunit 6 family
RYU24_07440	COG0713	ATP synthesis coupled electron transport
RYU24_07450	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
RYU24_07460	COG1008	NDH-1 shuttles electrons from NAD(P)H, 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 plastoquinone. 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
RYU24_07510	COG1278	Cold shock
RYU24_07520	COG0583	DNA-binding transcription factor activity
RYU24_07560	COG0668	transmembrane transport
RYU24_07590	COG2081	HI0933 family
RYU24_07640	COG0004	ammonium transporteR
RYU24_07650	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
RYU24_07680	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
RYU24_07680	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
RYU24_07700	COG0489	protein tyrosine kinase activity
RYU24_07730	COG2358	TRAP transporter, solute receptor (TAXI family
RYU24_07870	COG0840	transmembrane signaling receptor activity
RYU24_07930	COG2832	Protein of unknown function (DUF454)
RYU24_07970	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
RYU24_07990	COG1289	transmembrane transporter activity
RYU24_08000	COG2814	Major facilitator Superfamily
RYU24_08020	COG0786	glutamate:sodium symporter activity
RYU24_08030	COG1115	amino acid carrier protein
RYU24_08040	COG2059	Chromate
RYU24_08050	COG1752	Esterase of the alpha-beta hydrolase superfamily
RYU24_08070	COG1607	acyl-coa hydrolase
RYU24_08090	COG2814	Major facilitator Superfamily
RYU24_08100	COG0625	glutathione transferase activity
RYU24_08140	COG0523	cobalamin synthesis protein
RYU24_08160	COG1285	pathogenesis
RYU24_08180	COG2203	Gaf domain
RYU24_08180	COG2199	diguanylate cyclase activity
RYU24_08260	COG0242	peptide deformylase activity
RYU24_08270	COG0393	Putative heavy-metal-binding
RYU24_08280	COG0393	Putative heavy-metal-binding
RYU24_08290	COG1538	Outer membrane efflux protein
RYU24_08310	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
RYU24_08320	COG0671	phosphoesterase, PA-phosphatase related
RYU24_08350	COG0261	This protein binds to 23S rRNA in the presence of protein L20
RYU24_08370	COG2834	Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane)
RYU24_08390	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)
RYU24_08400	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
RYU24_08400	COG1648	precorrin-2 dehydrogenase activity
RYU24_08410	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
RYU24_08440	COG0531	amino acid
RYU24_08470	COG0321	lipoyl(octanoyl) transferase activity
RYU24_08490	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
RYU24_08530	COG0586	Pfam SNARE associated Golgi protein
RYU24_08640	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)
RYU24_08660	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
RYU24_08680	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
RYU24_08690	COG0358	DNA primase activity
RYU24_08710	COG0564	pseudouridine synthase activity
RYU24_08760	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
RYU24_08790	COG0110	maltose O-acetyltransferase activity
RYU24_08800	COG0251	oxidation-reduction process
RYU24_08810	COG1309	transcriptional regulator
RYU24_08830	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
RYU24_08840	COG0505	Belongs to the CarA family
RYU24_08890	COG0293	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit
RYU24_08900	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
RYU24_08920	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
RYU24_08980	COG1253	flavin adenine dinucleotide binding
RYU24_09030	COG2239	Acts as a magnesium transporter
RYU24_09050	COG0501	Belongs to the peptidase M48B family
RYU24_09060	COG1196	nuclear chromosome segregation
RYU24_09060	COG0741	lytic transglycosylase activity
RYU24_09060	COG0739	heme binding
RYU24_09070	COG0037	tRNA processing
RYU24_09090	COG4623	carbon-oxygen lyase activity, acting on polysaccharides
RYU24_09100	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
RYU24_09110	COG0583	DNA-binding transcription factor activity
RYU24_09120	COG1960	acyl-CoA dehydrogenase activity
RYU24_09140	COG2269	With EpmB is involved in the beta-lysylation step of the post-translational modification of translation elongation factor P (EF-P). Catalyzes the ATP-dependent activation of (R)-beta-lysine produced by EpmB, forming a lysyl-adenylate, from which the beta- lysyl moiety is then transferred to the epsilon-amino group of a conserved specific lysine residue in EF-P
RYU24_09190	COG1385	rRNA (uridine-N3-)-methyltransferase activity
RYU24_09200	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
RYU24_09210	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
RYU24_09250	COG0790	COG0790 FOG TPR repeat, SEL1 subfamily
RYU24_09290	COG1115	amino acid carrier protein
RYU24_09300	COG1113	amino acid transport
RYU24_09340	COG0596	Alpha beta hydrolase
RYU24_09350	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
RYU24_09370	COG1522	sequence-specific DNA binding
RYU24_09380	COG1280	lysine exporter protein (LysE YggA)
RYU24_09470	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
RYU24_09510	COG1671	Belongs to the UPF0178 family
RYU24_09550	COG1136	(ABC) transporter
RYU24_09560	COG2333	competence protein COMEC
RYU24_09560	COG0658	competence protein
RYU24_09590	COG2267	carboxylic ester hydrolase activity
RYU24_09600	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
RYU24_09610	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
RYU24_09620	COG0628	permease
RYU24_09630	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
RYU24_09690	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
RYU24_09730	COG0823	Involved in the tonB-independent uptake of proteins
RYU24_09770	COG0824	Thioesterase
RYU24_09780	COG1473	amidohydrolase
RYU24_09790	COG2255	four-way junction helicase activity
RYU24_09840	COG3293	Transposase
RYU24_09850	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
RYU24_09850	COG0047	phosphoribosylformylglycinamidine synthase activity
RYU24_09880	COG0583	DNA-binding transcription factor activity
RYU24_09920	COG0778	Nitroreductase
RYU24_09930	COG1024	Enoyl-CoA hydratase
RYU24_09940	COG1051	belongs to the nudix hydrolase family
RYU24_09940	COG1056	cytidyltransferase-related domain
RYU24_09950	COG2353	YceI-like domain
RYU24_09960	COG0583	DNA-binding transcription factor activity
RYU24_09970	COG1279	arginine transmembrane transporter activity
RYU24_09980	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
RYU24_10000	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
RYU24_10010	COG0602	queuosine metabolic process
RYU24_10060	COG0583	DNA-binding transcription factor activity
RYU24_10070	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
RYU24_10080	COG4208	sulfate ABC transporter
RYU24_10090	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
RYU24_10110	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
RYU24_10120	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
RYU24_10140	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
RYU24_10180	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
RYU24_10230	COG0571	ribonuclease III activity
RYU24_10240	COG1159	An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism
RYU24_10260	COG1381	Involved in DNA repair and RecF pathway recombination
RYU24_10270	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
RYU24_10330	COG0436	Aminotransferase
RYU24_10350	COG0052	Belongs to the universal ribosomal protein uS2 family
RYU24_10400	COG2951	lytic endotransglycosylase activity
RYU24_10430	COG0842	Transport permease protein
RYU24_10440	COG1131	(ABC) transporter
RYU24_10590	COG3634	alkyl hydroperoxide reductase activity
RYU24_10600	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
RYU24_10610	COG0826	peptidase U32
RYU24_10660	COG4993	Dehydrogenase
RYU24_10680	COG1720	tRNA m6t6A37 methyltransferase activity
RYU24_10720	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
RYU24_10750	COG0642	Histidine kinase
RYU24_10770	COG0494	nUDIX hydrolase
RYU24_10790	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
RYU24_10800	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
RYU24_10810	COG3139	Protein of unknown function (DUF1315)
RYU24_10830	COG1301	dicarboxylic acid transport
RYU24_10850	COG1960	acyl-CoA dehydrogenase activity
RYU24_10860	COG0693	protein deglycase activity
RYU24_10870	COG0693	protein deglycase activity
RYU24_10890	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
RYU24_10900	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
RYU24_10950	COG2252	PERMEase
RYU24_10960	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
RYU24_10990	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
RYU24_11010	COG0527	aspartate kinase activity
RYU24_11020	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
RYU24_11030	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
RYU24_11080	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
RYU24_11090	COG0501	Belongs to the peptidase M48B family
RYU24_11130	COG1252	NADH dehydrogenase
RYU24_11140	COG1686	Belongs to the peptidase S11 family
RYU24_11170	COG2351	hydroxyisourate hydrolase activity
RYU24_11210	COG5002	protein histidine kinase activity
RYU24_11210	COG3850	Histidine kinase
RYU24_11220	COG1187	pseudouridine synthase activity
RYU24_11270	COG2755	lipolytic protein G-D-S-L family
RYU24_11270	COG1835	transferase activity, transferring acyl groups other than amino-acyl groups
RYU24_11300	COG0436	Aminotransferase
RYU24_11310	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
RYU24_11320	COG0386	Belongs to the glutathione peroxidase family
RYU24_11340	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
RYU24_11380	COG1296	Branched-chain amino acid permease (Azaleucine resistance)
RYU24_11410	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
RYU24_11420	COG0012	GTP binding
RYU24_11430	COG2011	ABC-type metal ion transport system permease component
RYU24_11440	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
RYU24_11450	COG1464	Belongs to the NlpA lipoprotein family
RYU24_11620	COG0582	viral genome integration into host DNA
RYU24_11630	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
RYU24_11640	COG2801	Transposase and inactivated derivatives
RYU24_11660	COG1113	amino acid transport
RYU24_11680	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
RYU24_11690	COG1012	belongs to the aldehyde dehydrogenase family
RYU24_11700	COG3293	Transposase
RYU24_11730	COG1401	restriction endodeoxyribonuclease activity
RYU24_11790	COG1522	sequence-specific DNA binding
RYU24_11800	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
RYU24_11820	COG3138	arginine N-succinyltransferase
RYU24_11830	COG1012	belongs to the aldehyde dehydrogenase family
RYU24_11840	COG3724	N-succinylarginine dihydrolase activity
RYU24_11860	COG1113	amino acid transport
RYU24_11880	COG2801	Transposase and inactivated derivatives
RYU24_11960	COG4638	Rieske (2fe-2S)
RYU24_12020	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
RYU24_12020	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
RYU24_12030	COG1254	Belongs to the acylphosphatase family
RYU24_12100	COG3634	alkyl hydroperoxide reductase activity
RYU24_12150	COG1643	Atp-dependent helicase
RYU24_12190	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
RYU24_12200	COG2707	UPF0756 membrane protein
RYU24_12250	COG0802	atpase or kinase
RYU24_12260	COG0323	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a molecular matchmaker , a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
RYU24_12280	COG1923	regulation of RNA biosynthetic process
RYU24_12290	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
RYU24_12310	COG3178	'Phosphotransferase
RYU24_12320	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
RYU24_12340	COG1192	Involved in chromosome partitioning
RYU24_12350	COG1475	DNA binding
RYU24_12360	COG0811	peptide transport
RYU24_12380	COG1132	(ABC) transporter
RYU24_12390	COG1663	tetraacyldisaccharide 4'-kinase activity
RYU24_12430	COG0084	hydrolase, TatD family'
RYU24_12440	COG1309	transcriptional regulator
RYU24_12500	COG0692	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
RYU24_12560	COG0776	regulation of translation
RYU24_12600	COG2431	L-lysine efflux transmembrane transporter activity
RYU24_12640	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
RYU24_12690	COG1253	flavin adenine dinucleotide binding
RYU24_12700	COG2145	Catalyzes the phosphorylation of the hydroxyl group of 4-methyl-5-beta-hydroxyethylthiazole (THZ)
RYU24_12730	COG0308	aminopeptidase N
RYU24_12750	COG0589	response to stress
RYU24_12760	COG0589	response to stress
RYU24_12790	COG3135	benzoate transporter
RYU24_12810	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
RYU24_12840	COG0183	Belongs to the thiolase family
RYU24_12890	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
RYU24_12900	COG0824	Thioesterase
RYU24_12910	COG1454	alcohol dehydrogenase
RYU24_12920	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
RYU24_12960	COG0069	glutamate synthase activity
RYU24_12980	COG2308	Evidence 4 Homologs of previously reported genes of
RYU24_13000	COG1305	Transglutaminase-like
RYU24_13030	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
RYU24_13040	COG0305	Participates in initiation and elongation during chromosome replication
RYU24_13070	COG0360	Binds together with S18 to 16S ribosomal RNA
RYU24_13090	COG3125	oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor
RYU24_13100	COG1845	cytochrome c oxidase, subunit III
RYU24_13110	COG0843	Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B
RYU24_13120	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
RYU24_13170	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
RYU24_13200	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
RYU24_13210	COG2890	protein-(glutamine-N5) methyltransferase activity
RYU24_13220	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
RYU24_13230	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
RYU24_13270	COG1960	acyl-CoA dehydrogenase activity
RYU24_13280	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
RYU24_13310	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
RYU24_13330	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
RYU24_13370	COG0477	Major facilitator Superfamily
RYU24_13380	COG0729	surface antigen
RYU24_13690	COG5410	chromosome segregation
RYU24_14020	COG1570	exodeoxyribonuclease VII activity
RYU24_14090	COG0786	glutamate:sodium symporter activity
RYU24_14140	COG0024	Methionine aminopeptidase
RYU24_14150	COG0583	DNA-binding transcription factor activity
RYU24_14160	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
RYU24_14190	COG0446	pyridine nucleotide-disulphide oxidoreductase
RYU24_14190	COG1902	pentaerythritol trinitrate reductase activity
RYU24_14250	COG0148	phosphopyruvate hydratase activity
RYU24_14280	COG0772	Belongs to the SEDS family
RYU24_14310	COG1294	oxidase, subunit
RYU24_14410	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
RYU24_14450	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
RYU24_14470	COG0133	tryptophan synthase activity
RYU24_14480	COG0517	IMP dehydrogenase activity
RYU24_14480	COG0516	GMP reductase activity
RYU24_14540	COG0612	Peptidase, M16
RYU24_14550	COG0552	protein localization to endoplasmic reticulum
RYU24_14610	COG1960	acyl-CoA dehydrogenase activity
RYU24_14760	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
RYU24_14770	COG0730	response to heat
RYU24_14780	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
RYU24_14790	COG2207	Transcriptional regulator
RYU24_14800	COG3696	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
RYU24_14810	COG1960	acyl-CoA dehydrogenase activity
RYU24_14840	COG1476	TRANSCRIPTIONal
RYU24_14870	COG1271	oxidase subunit
RYU24_14880	COG1294	oxidase, subunit
RYU24_14890	COG1525	nuclease
RYU24_15000	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
RYU24_15010	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
RYU24_15030	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
RYU24_15060	COG2814	Major facilitator Superfamily
RYU24_15070	COG0509	glycine decarboxylation via glycine cleavage system
RYU24_15090	COG1132	(ABC) transporter
RYU24_15100	COG0668	transmembrane transport
RYU24_15120	COG3122	Protein conserved in bacteria
RYU24_15160	COG0640	Transcriptional regulator
RYU24_15170	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
RYU24_15190	COG0789	Transcriptional regulator
RYU24_15220	COG1960	acyl-CoA dehydrogenase activity
RYU24_15230	COG0183	Belongs to the thiolase family
RYU24_15290	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
RYU24_15300	COG0183	Belongs to the thiolase family
RYU24_15310	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
RYU24_15320	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
RYU24_15330	COG3135	benzoate transporter
RYU24_15340	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_15350	COG0543	2 iron, 2 sulfur cluster binding
RYU24_15350	COG0633	Ferredoxin
RYU24_15360	COG5517	Aromatic-ring-hydroxylating dioxygenase beta subunit
RYU24_15370	COG4638	Rieske (2fe-2S)
RYU24_15390	COG4829	muconolactone delta-isomerase
RYU24_15400	COG4948	Mandelate Racemase Muconate Lactonizing
RYU24_15410	COG0583	DNA-binding transcription factor activity
RYU24_15420	COG2814	Major facilitator Superfamily
RYU24_15440	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
RYU24_15460	COG0318	PFAM AMP-dependent synthetase and ligase
RYU24_15500	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
RYU24_15530	COG0439	Biotin carboxylase
RYU24_15580	COG2885	chlorophyll binding
RYU24_15580	COG3047	cAMP biosynthetic process
RYU24_15590	COG0864	Transcriptional regulator
RYU24_15610	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
RYU24_15660	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
RYU24_15670	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
RYU24_15680	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
RYU24_15680	COG1116	anion transmembrane transporter activity
RYU24_15710	COG4771	TonB-dependent receptor
RYU24_15730	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
RYU24_15740	COG1309	transcriptional regulator
RYU24_15780	COG1944	ATP diphosphatase activity
RYU24_15800	COG1960	acyl-CoA dehydrogenase activity
RYU24_15810	COG1960	acyl-CoA dehydrogenase activity
RYU24_15820	COG2814	Major facilitator Superfamily
RYU24_15830	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
RYU24_15840	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
RYU24_15860	COG2814	Major facilitator Superfamily
RYU24_15880	COG2814	Major facilitator Superfamily
RYU24_15900	COG1250	3-hydroxyacyl-CoA dehydrogenase
RYU24_15910	COG0183	Belongs to the thiolase family
RYU24_15930	COG0235	Class ii aldolase
RYU24_15940	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
RYU24_15950	COG1024	Enoyl-CoA hydratase
RYU24_15970	COG1960	acyl-CoA dehydrogenase activity
RYU24_16000	COG0318	PFAM AMP-dependent synthetase and ligase
RYU24_16010	COG1804	L-carnitine dehydratase bile acid-inducible protein F
RYU24_16020	COG2814	Major facilitator Superfamily
RYU24_16040	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_16050	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
RYU24_16070	COG0318	PFAM AMP-dependent synthetase and ligase
RYU24_16100	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_16130	COG1136	(ABC) transporter
RYU24_16140	COG0640	Transcriptional regulator
RYU24_16190	COG2132	Multicopper oxidase
RYU24_16240	COG4773	Receptor
RYU24_16250	COG1513	Catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide
RYU24_16260	COG2116	formate transmembrane transporter activity
RYU24_16270	COG0515	serine threonine protein kinase
RYU24_16310	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
RYU24_16320	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
RYU24_16360	COG0583	DNA-binding transcription factor activity
RYU24_16380	COG1289	transmembrane transporter activity
RYU24_16430	COG4772	TonB-dependent receptor
RYU24_16470	COG0402	S-adenosylhomocysteine deaminase activity
RYU24_16480	COG1079	Belongs to the binding-protein-dependent transport system permease family
RYU24_16500	COG3845	ABC transporter
RYU24_16540	COG0583	DNA-binding transcription factor activity
RYU24_16570	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
RYU24_16580	COG4266	Belongs to the allantoicase family
RYU24_16610	COG2233	PERMEase
RYU24_16620	COG2351	hydroxyisourate hydrolase activity
RYU24_16660	COG0804	urea catabolic process
RYU24_16720	COG0830	nickel cation binding
RYU24_16800	COG0596	Alpha beta hydrolase
RYU24_16880	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
RYU24_16950	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
RYU24_16980	COG0439	Biotin carboxylase
RYU24_17000	COG3706	GGDEF domain
RYU24_17020	COG2814	Major facilitator Superfamily
RYU24_17030	COG2814	Major facilitator Superfamily
RYU24_17120	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
RYU24_17140	COG5499	transcription regulator containing HTH domain
RYU24_17150	COG4680	protein conserved in bacteria
RYU24_17180	COG0606	chelatase, subunit chli
RYU24_17250	COG1546	Belongs to the CinA family
RYU24_17250	COG1058	Belongs to the CinA family
RYU24_17270	COG0372	Belongs to the citrate synthase family
RYU24_17330	COG0542	response to heat
RYU24_17340	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
RYU24_17380	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
RYU24_17390	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
RYU24_17400	COG0569	domain protein
RYU24_17410	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
RYU24_17450	COG0524	Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway
RYU24_17470	COG1585	Membrane protein implicated in regulation of membrane protease activity
RYU24_17520	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
RYU24_17560	COG1959	2 iron, 2 sulfur cluster binding
RYU24_17580	COG0822	iron-sulfur transferase activity
RYU24_17590	COG0316	Belongs to the HesB IscA family
RYU24_17650	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
RYU24_17670	COG1027	Aspartate ammonia-lyase
RYU24_17680	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
RYU24_17710	COG0506	proline dehydrogenase activity
RYU24_17710	COG4230	.,Oxidizes proline to glutamate for use as a carbon and nitrogen source
RYU24_17710	COG3905	.,Oxidizes proline to glutamate for use as a carbon and nitrogen source
RYU24_17760	COG3781	membrane
RYU24_17770	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)
RYU24_17870	COG0697	spore germination
RYU24_17920	COG0424	maF-like protein
RYU24_17930	COG2850	peptidyl-arginine hydroxylation
RYU24_17940	COG4585	Histidine kinase
RYU24_17950	COG2197	response regulator
RYU24_17970	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
RYU24_17980	COG0702	epimerase
RYU24_17990	COG0268	Binds directly to 16S ribosomal RNA
RYU24_18020	COG1011	Hydrolase
RYU24_18030	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
RYU24_18050	COG2137	regulation of response to DNA damage stimulus
RYU24_18080	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
RYU24_18090	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
RYU24_18120	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
RYU24_18150	COG0575	Belongs to the CDS family
RYU24_18160	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
RYU24_18200	COG3852	Histidine kinase
RYU24_18230	COG0445	tRNA wobble uridine modification
RYU24_18290	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
RYU24_18300	COG0138	bifunctional purine biosynthesis protein purh
RYU24_18340	COG1464	Belongs to the NlpA lipoprotein family
RYU24_18350	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
RYU24_18360	COG2011	ABC-type metal ion transport system permease component
RYU24_18440	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
RYU24_18460	COG4122	O-methyltransferase activity
RYU24_18570	COG1137	ATPase activity
RYU24_18580	COG1934	Involved in the assembly of lipopolysaccharide (LPS). Required for the translocation of LPS from the inner membrane to the outer membrane. May form a bridge between the inner membrane and the outer membrane, via interactions with LptC and LptD, thereby facilitating LPS transfer across the periplasm
RYU24_18600	COG1778	Involved in the biosynthesis of lipopolysaccharides (LPSs). Catalyzes the hydrolysis of 3-deoxy-D-manno-octulosonate 8-phosphate (KDO 8-P) to 3-deoxy-D-manno-octulosonate (KDO) and inorganic phosphate
RYU24_18610	COG0517	IMP dehydrogenase activity
RYU24_18610	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
RYU24_18650	COG2801	Transposase and inactivated derivatives
RYU24_18710	COG0505	Belongs to the CarA family
RYU24_18750	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
RYU24_18790	COG2391	methyltransferase activity
RYU24_18910	COG2267	carboxylic ester hydrolase activity
RYU24_18990	COG0352	thiamine-phosphate diphosphorylase activity
RYU24_19020	COG3025	triphosphatase activity
RYU24_19070	COG0612	Peptidase, M16
RYU24_19100	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
RYU24_19180	COG2199	diguanylate cyclase activity
RYU24_19180	COG2203	Gaf domain
RYU24_19210	COG1610	YqeY-like protein
RYU24_19240	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
RYU24_19340	COG0778	Nitroreductase
RYU24_19360	COG0513	Belongs to the DEAD box helicase family
RYU24_19400	COG2363	Small membrane protein
RYU24_19450	COG2249	NAD(P)H dehydrogenase (quinone) activity
RYU24_19470	COG0659	secondary active sulfate transmembrane transporter activity
RYU24_19480	COG0220	tRNA (guanine-N7-)-methyltransferase activity
RYU24_19520	COG0318	PFAM AMP-dependent synthetase and ligase
RYU24_19530	COG1309	transcriptional regulator
RYU24_19540	COG1960	acyl-CoA dehydrogenase activity
RYU24_19550	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
RYU24_19560	COG1024	Enoyl-CoA hydratase
RYU24_19570	COG4770	biotin carboxylase activity
RYU24_19600	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
RYU24_19610	COG2031	fatty acid transporter
RYU24_19640	COG0540	Belongs to the ATCase OTCase family
RYU24_19690	COG0667	Aldo Keto reductase
RYU24_19710	COG1765	OsmC-like protein
RYU24_19720	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
RYU24_19740	COG3293	Transposase
RYU24_19780	COG0714	Associated with various cellular activities
RYU24_19790	COG2879	small protein
RYU24_19800	COG1966	Carbon starvation protein
RYU24_19810	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
RYU24_19890	COG1067	ATP-dependent peptidase activity
RYU24_19900	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
RYU24_19910	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
RYU24_19920	COG0583	DNA-binding transcription factor activity
RYU24_19970	COG1686	Belongs to the peptidase S11 family
RYU24_19980	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
RYU24_20000	COG0488	(ABC) transporter
RYU24_20010	COG0488	(ABC) transporter
RYU24_20020	COG1835	transferase activity, transferring acyl groups other than amino-acyl groups
RYU24_20020	COG2755	lipolytic protein G-D-S-L family
RYU24_20040	COG0482	sulfurtransferase activity
RYU24_20100	COG0616	signal peptide processing
RYU24_20120	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
RYU24_20140	COG0573	inorganic phosphate transmembrane transporter activity
RYU24_20150	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
RYU24_20160	COG1113	amino acid transport
RYU24_20170	COG3961	Belongs to the TPP enzyme family
RYU24_20180	COG1522	sequence-specific DNA binding
RYU24_20190	COG1012	belongs to the aldehyde dehydrogenase family
RYU24_20210	COG0076	glutamate decarboxylase activity
RYU24_20220	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
RYU24_20240	COG0671	phosphoesterase, PA-phosphatase related
RYU24_20290	COG1733	regulation of RNA biosynthetic process
RYU24_20320	COG3040	lipid binding
RYU24_20330	COG0556	nucleotide-excision repair
RYU24_20430	COG2721	sulfolactate sulfo-lyase activity
RYU24_20460	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
RYU24_20470	COG1960	acyl-CoA dehydrogenase activity
RYU24_20490	COG2084	Dehydrogenase
RYU24_20500	COG2233	PERMEase
RYU24_20510	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
RYU24_20520	COG0251	oxidation-reduction process
RYU24_20530	COG1335	isochorismatase
RYU24_20540	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
RYU24_20550	COG0596	Alpha beta hydrolase
RYU24_20570	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
RYU24_20580	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
RYU24_20590	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
RYU24_20630	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
RYU24_20660	COG0174	glutamine synthetase
RYU24_20670	COG3293	Transposase
RYU24_20680	COG0512	Glutamine amidotransferase of anthranilate synthase
RYU24_20690	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
RYU24_20720	COG0302	gtp cyclohydrolase
RYU24_20750	COG3706	GGDEF domain
RYU24_20780	COG3739	integral membrane protein
RYU24_20810	COG1741	Belongs to the pirin family
RYU24_20850	COG1058	Belongs to the CinA family
RYU24_20850	COG1546	Belongs to the CinA family
RYU24_20890	COG0281	malic enzyme
RYU24_20980	COG1785	Belongs to the alkaline phosphatase family
RYU24_20990	COG1785	Belongs to the alkaline phosphatase family
RYU24_21010	COG0446	pyridine nucleotide-disulphide oxidoreductase
RYU24_21010	COG1902	pentaerythritol trinitrate reductase activity
RYU24_21040	COG3706	GGDEF domain
RYU24_21050	COG0418	dihydroorotase activity
RYU24_21060	COG0847	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease
RYU24_21070	COG0833	amino acid
RYU24_21080	COG0833	amino acid
RYU24_21140	COG4239	(ABC) transporter, permease
RYU24_21150	COG4174	ABC transporter (Permease)
RYU24_21160	COG4166	transmembrane transport
RYU24_21170	COG1388	LysM domain
RYU24_21170	COG0741	lytic transglycosylase activity
RYU24_21200	COG2816	NAD+ diphosphatase activity
RYU24_21210	COG0657	acetylesterase activity
RYU24_21240	COG3107	peptidoglycan biosynthetic process
RYU24_21270	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
RYU24_21280	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
RYU24_21330	COG2155	Conserved Protein
RYU24_21340	COG0006	proline dipeptidase activity
RYU24_21380	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
RYU24_21400	COG2234	aminopeptidase activity
RYU24_21410	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
RYU24_21420	COG3384	dioxygenase
RYU24_21440	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
RYU24_21450	COG2878	Part of a membrane complex involved in electron transport
RYU24_21460	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
RYU24_21510	COG0768	penicillin binding
RYU24_21520	COG0742	ribosomal rna small subunit methyltransferase
RYU24_21550	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_21610	COG0459	protein refolding
RYU24_21640	COG1597	lipid kinase activity
RYU24_21660	COG0477	Major facilitator Superfamily
RYU24_21690	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
RYU24_21720	COG0604	alcohol dehydrogenase
RYU24_21720	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
RYU24_21720	COG3321	synthase
RYU24_21720	COG4221	oxidoreductase activity
RYU24_21750	COG3118	belongs to the thioredoxin family
RYU24_21840	COG2268	Band 7 protein
RYU24_21850	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
RYU24_21870	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
RYU24_21900	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
RYU24_21910	COG1053	succinate dehydrogenase
RYU24_21920	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
RYU24_21960	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
RYU24_21960	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
RYU24_21980	COG0589	response to stress
RYU24_22020	COG2321	neutral zinc metallopeptidase
RYU24_22030	COG2354	Protein conserved in bacteria
RYU24_22100	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
RYU24_22110	COG1773	rubredoxin
RYU24_22120	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
RYU24_22140	COG0583	DNA-binding transcription factor activity
RYU24_22170	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
RYU24_22190	COG3127	ABC-type transport system involved in lysophospholipase L1, biosynthesis, permease component
RYU24_22200	COG4181	ATPase activity
RYU24_22250	COG4771	TonB-dependent receptor
RYU24_22280	COG4607	ABC-type enterochelin transport system periplasmic component
RYU24_22300	COG0306	phosphate transporter
RYU24_22370	COG2852	Protein conserved in bacteria
RYU24_22380	COG2376	Dihydroxyacetone kinase
RYU24_22390	COG2066	Belongs to the glutaminase family
RYU24_22400	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_22420	COG0525	valine-tRNA ligase activity
RYU24_22450	COG3293	Transposase
RYU24_22490	COG2323	membrane
RYU24_22500	COG0546	phosphoglycolate phosphatase activity
RYU24_22540	COG1752	Esterase of the alpha-beta hydrolase superfamily
RYU24_22570	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
RYU24_22580	COG0142	geranyltranstransferase activity
RYU24_22590	COG2828	Protein conserved in bacteria
RYU24_22600	COG1113	amino acid transport
RYU24_22630	COG0560	Phosphoserine phosphatase
RYU24_22650	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
RYU24_22680	COG0424	maF-like protein
RYU24_22690	COG2891	Involved in formation of the rod shape of the cell. May also contribute to regulation of formation of penicillin-binding proteins
RYU24_22700	COG1792	Involved in formation and maintenance of cell shape
RYU24_22710	COG1077	Cell shape determining protein MreB Mrl
RYU24_22720	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)
RYU24_22740	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)
RYU24_22780	COG0697	spore germination
RYU24_22800	COG3590	peptidase
RYU24_22810	COG3590	peptidase
RYU24_22830	COG1133	In Escherichia coli SbmA is involved in uptake of microcin J25
RYU24_22860	COG0380	Probably involved in the osmoprotection via the biosynthesis of trehalose. Catalyzes the transfer of glucose from UDP-glucose (UDP-Glc) to D-glucose 6-phosphate (Glc-6-P) to form trehalose-6-phosphate. Acts with retention of the anomeric configuration of the UDP-sugar donor
RYU24_22870	COG2223	nitrite transmembrane transporter activity
RYU24_22890	COG0500	methyltransferase
RYU24_22940	COG0783	Belongs to the Dps family
RYU24_22950	COG2826	transposase and inactivated derivatives, IS30 family
RYU24_22960	COG3706	GGDEF domain
RYU24_22980	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
RYU24_22990	COG4149	molybdate abc transporter
RYU24_23000	COG0725	ABC transporter, periplasmic molybdate-binding protein
RYU24_23010	COG0303	'Molybdopterin
RYU24_23020	COG0315	cyclic pyranopterin monophosphate synthase activity
RYU24_23020	COG0521	Mo-molybdopterin cofactor biosynthetic process
RYU24_23050	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
RYU24_23070	COG0243	molybdopterin cofactor binding
RYU24_23080	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
RYU24_23090	COG1251	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
RYU24_23100	COG2223	nitrite transmembrane transporter activity
RYU24_23150	COG1113	amino acid transport
RYU24_23160	COG1448	Aminotransferase
RYU24_23190	COG0625	glutathione transferase activity
RYU24_23220	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
RYU24_23230	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
RYU24_23240	COG2814	Major facilitator Superfamily
RYU24_23250	COG1566	PFAM secretion protein HlyD family protein
RYU24_23260	COG2050	protein possibly involved in aromatic compounds catabolism
RYU24_23280	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
RYU24_23290	COG1090	epimerase
RYU24_23340	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
RYU24_23470	COG0420	3'-5' exonuclease activity
RYU24_23530	COG0735	belongs to the Fur family
RYU24_23540	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
RYU24_23550	COG2914	Belongs to the UPF0125 (RnfH) family
RYU24_23580	COG0121	glutamine amidotransferase
RYU24_23610	COG0756	dUTP diphosphatase activity
RYU24_23630	COG2885	chlorophyll binding
RYU24_23640	COG0204	Acyl-transferase
RYU24_23660	COG0850	regulation of cytokinetic process
RYU24_23700	COG1674	ftsk spoiiie
RYU24_23700	COG0531	amino acid
RYU24_23710	COG0492	ferredoxin-NADP+ reductase activity
RYU24_23720	COG2360	Functions in the N-end rule pathway of protein degradation where it conjugates Leu, Phe and, less efficiently, Met from aminoacyl-tRNAs to the N-termini of proteins containing an N-terminal arginine or lysine
RYU24_23740	COG0456	acetyltransferase
RYU24_23790	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
RYU24_23820	COG1981	membrane
RYU24_23830	COG1113	amino acid transport
RYU24_23840	COG0251	oxidation-reduction process
RYU24_23880	COG1652	LysM domain
RYU24_23890	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
RYU24_23900	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_23920	COG0333	Belongs to the bacterial ribosomal protein bL32 family
RYU24_23930	COG1399	metal-binding, possibly nucleic acid-binding protein
RYU24_23940	COG3101	peptidyl-lysine hydroxylation
RYU24_23950	COG0009	L-threonylcarbamoyladenylate synthase
RYU24_23980	COG1354	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpB that pull DNA away from mid-cell into both cell halves
RYU24_23990	COG1386	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpA that pull DNA away from mid-cell into both cell halves
RYU24_24040	COG0339	signal peptide processing
RYU24_24060	COG4166	transmembrane transport
RYU24_24080	COG0810	Interacts with outer membrane receptor proteins that carry out high-affinity binding and energy dependent uptake into the periplasmic space of specific substrates. It could act to transduce energy from the cytoplasmic membrane to specific energy- requiring processes in the outer membrane, resulting in the release into the periplasm of ligands bound by these outer membrane proteins
RYU24_24120	COG2193	ferroxidase activity
RYU24_24130	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
RYU24_24140	COG3129	Specifically methylates the adenine in position 1618 of 23S rRNA
RYU24_24150	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
RYU24_24170	COG1196	nuclear chromosome segregation
RYU24_24190	COG0730	response to heat
RYU24_24220	COG3545	Serine hydrolase
RYU24_24240	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
RYU24_24280	COG2226	methyltransferase
RYU24_24300	COG3327	negative regulation of DNA-templated transcription, initiation
RYU24_24310	COG1541	Catalyzes the activation of phenylacetic acid (PA) to phenylacetyl-CoA (PA-CoA)
RYU24_24320	COG0183	Belongs to the thiolase family
RYU24_24330	COG1024	Enoyl-CoA hydratase
RYU24_24340	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
RYU24_24350	COG2151	metal-sulfur cluster biosynthetic enzyme
RYU24_24360	COG3396	Phenylacetate-CoA oxygenase
RYU24_24370	COG3460	Phenylacetate-CoA oxygenase
RYU24_24380	COG3396	Phenylacetate-CoA oxygenase
RYU24_24390	COG1012	belongs to the aldehyde dehydrogenase family
RYU24_24390	COG2030	dehydratase
RYU24_24400	COG2814	Major facilitator Superfamily
RYU24_24430	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
RYU24_24450	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
RYU24_24480	COG4269	membrane
RYU24_24490	COG0627	Serine hydrolase involved in the detoxification of formaldehyde
RYU24_24520	COG1968	undecaprenyl-diphosphatase activity
RYU24_24530	COG1214	PFAM Peptidase M22, glycoprotease
RYU24_24550	COG0494	nUDIX hydrolase
RYU24_24650	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
RYU24_24660	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
RYU24_24710	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
RYU24_24720	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
RYU24_24750	COG0450	alkyl hydroperoxide reductase
RYU24_24780	COG0285	dihydrofolate synthase activity
RYU24_24880	COG2096	Adenosyltransferase
RYU24_24890	COG3293	Transposase
RYU24_24920	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
RYU24_24930	COG2315	Protein conserved in bacteria
RYU24_24950	COG1113	amino acid transport
RYU24_24970	COG0745	RESPONSE REGULATOR receiver
RYU24_24980	COG2205	protein histidine kinase activity
RYU24_25000	COG1960	acyl-CoA dehydrogenase activity
RYU24_25010	COG1960	acyl-CoA dehydrogenase activity
RYU24_25090	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)
RYU24_25200	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
RYU24_25210	COG2205	protein histidine kinase activity
RYU24_25240	COG1660	Displays ATPase and GTPase activities
RYU24_25270	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
RYU24_25280	COG0617	tRNA 3'-terminal CCA addition
RYU24_25290	COG1596	polysaccharide export
RYU24_25290	COG1555	photosystem II stabilization
RYU24_25300	COG3956	TIGRFAM MazG family protein
RYU24_25310	COG4221	oxidoreductase activity
RYU24_25340	COG0675	Transposase, IS605 OrfB family
RYU24_25450	COG1426	Protein conserved in bacteria
RYU24_25490	COG2975	iron-sulfur cluster assembly
RYU24_25530	COG0028	Belongs to the TPP enzyme family
RYU24_25590	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
RYU24_25600	COG1136	(ABC) transporter
RYU24_25600	COG0577	efflux transmembrane transporter activity
RYU24_25610	COG1538	Outer membrane efflux protein
RYU24_25630	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
RYU24_25650	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
RYU24_25660	COG1162	GTPase activity
RYU24_25720	COG0084	hydrolase, TatD family'
RYU24_25750	COG4108	Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP
RYU24_25780	COG1674	ftsk spoiiie
RYU24_25850	COG2233	PERMEase
RYU24_26130	COG0793	Belongs to the peptidase S41A family
RYU24_26180	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
RYU24_26190	COG0280	phosphate acetyltransferase
RYU24_26190	COG0857	belongs to the CobB CobQ family
RYU24_26210	COG1838	Catalyzes the reversible hydration of fumarate to (S)- malate
RYU24_26210	COG1951	Catalyzes the reversible hydration of fumarate to (S)- malate
RYU24_26240	COG0740	serine-type endopeptidase activity
RYU24_26260	COG4774	siderophore transport
RYU24_26280	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)
RYU24_26290	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
RYU24_26300	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
RYU24_26300	COG2813	Specifically methylates the guanine in position
RYU24_26400	COG3040	lipid binding
RYU24_26420	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
RYU24_26490	COG0788	formyltetrahydrofolate deformylase activity
RYU24_26540	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
RYU24_26540	COG4651	solute:proton antiporter activity
RYU24_26570	COG0724	RNA recognition motif
RYU24_26580	COG0210	DNA helicase
RYU24_26590	COG1929	Belongs to the glycerate kinase type-1 family
RYU24_26670	COG2900	Belongs to the SlyX family
RYU24_26680	COG0488	(ABC) transporter
RYU24_26690	COG1560	Kdo2-lipid A biosynthetic process
RYU24_26820	COG0473	3-isopropylmalate dehydrogenase activity
RYU24_26850	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
RYU24_26950	COG0753	catalase activity
RYU24_26960	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
RYU24_26970	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
RYU24_27020	COG0519	Catalyzes the synthesis of GMP from XMP
RYU24_27040	COG0446	pyridine nucleotide-disulphide oxidoreductase
RYU24_27050	COG3384	dioxygenase
RYU24_27060	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_27090	COG4638	Rieske (2fe-2S)
RYU24_27100	COG0583	DNA-binding transcription factor activity
RYU24_27160	COG4569	acetaldehyde dehydrogenase (acetylating) activity
RYU24_27170	COG3971	2-oxopent-4-enoate hydratase activity
RYU24_27180	COG0546	phosphoglycolate phosphatase activity
RYU24_27200	COG1530	ribonuclease E activity
RYU24_27210	COG0318	PFAM AMP-dependent synthetase and ligase
RYU24_27230	COG1983	PspC domain protein
RYU24_27250	COG0471	metal ion transport
RYU24_27260	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
RYU24_27260	COG0517	IMP dehydrogenase activity
RYU24_27260	COG0617	tRNA 3'-terminal CCA addition
RYU24_27280	COG0752	glycyl-tRNA synthetase alpha subunit
RYU24_27290	COG0751	glycine-tRNA ligase activity
RYU24_27340	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
RYU24_27370	COG2226	methyltransferase
RYU24_27390	COG0644	oxidoreductase
RYU24_27410	COG3024	Inhibits all the catalytic activities of DNA gyrase by preventing its interaction with DNA. Acts by binding directly to the C-terminal domain of GyrB, which probably disrupts DNA binding by the gyrase
RYU24_27430	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
RYU24_27460	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
RYU24_27480	COG0644	oxidoreductase
RYU24_27480	COG2440	electron transfer flavoprotein-ubiquinone oxidoreductase
RYU24_27520	COG0425	Belongs to the sulfur carrier protein TusA family
RYU24_27530	COG4535	Mg2 and Co2 transporter CorC
RYU24_27580	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
RYU24_27600	COG1281	Redox regulated molecular chaperone. Protects both thermally unfolding and oxidatively damaged proteins from irreversible aggregation. Plays an important role in the bacterial defense system toward oxidative stress
RYU24_27640	COG0789	Transcriptional regulator
RYU24_27650	COG2841	Protein conserved in bacteria
RYU24_27670	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
RYU24_27680	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
RYU24_27690	COG1074	ATP-dependent DNA helicase activity
RYU24_27700	COG1330	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit recognizes the wild- type Chi sequence, and when added to isolated RecB increases its ATP-dependent helicase processivity
RYU24_27740	COG2226	methyltransferase
RYU24_27760	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
RYU24_27840	COG0427	acetyl-CoA hydrolase
RYU24_27850	COG2761	dithiol-disulfide isomerase involved in polyketide biosynthesis
RYU24_27920	COG0326	Molecular chaperone. Has ATPase activity
RYU24_27940	COG3047	cAMP biosynthetic process
RYU24_27950	COG2056	Na+-H+ antiporter family
RYU24_27990	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
RYU24_28000	COG0085	RNA polymerase activity
RYU24_28020	COG0222	ribosome binding
RYU24_28030	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
RYU24_28100	COG0546	phosphoglycolate phosphatase activity
RYU24_28160	COG0824	Thioesterase
RYU24_28200	COG0181	hydroxymethylbilane synthase activity
RYU24_28220	COG3275	phosphorelay sensor kinase activity
RYU24_28310	COG1250	3-hydroxyacyl-CoA dehydrogenase
RYU24_28310	COG1024	Enoyl-CoA hydratase
RYU24_28320	COG0183	Belongs to the thiolase family
RYU24_28410	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
RYU24_28470	COG2334	A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response
RYU24_28550	COG3158	transport of potassium into the cell
RYU24_28640	COG0629	single-stranded DNA binding
RYU24_28650	COG2814	Major facilitator Superfamily
RYU24_28680	COG0351	phosphomethylpyrimidine kinase
RYU24_28680	COG0352	thiamine-phosphate diphosphorylase activity
RYU24_28680	COG0819	Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway
RYU24_28710	COG3706	GGDEF domain
RYU24_28730	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
RYU24_28750	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
RYU24_28760	COG3162	membrane
RYU24_28770	COG0784	Response regulator, receiver
RYU24_28770	COG2198	Histidine kinase
RYU24_28770	COG2205	protein histidine kinase activity
RYU24_28800	COG0431	NADPH-dependent FMN reductase
RYU24_28820	COG0307	riboflavin synthase, alpha
RYU24_28850	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
RYU24_28870	COG0668	transmembrane transport
RYU24_28880	COG1385	rRNA (uridine-N3-)-methyltransferase activity
RYU24_28890	COG1519	Transferase
RYU24_28900	COG1902	pentaerythritol trinitrate reductase activity
RYU24_28950	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
RYU24_29000	COG0426	domain, Protein
RYU24_29000	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
RYU24_29010	COG2119	membrane
RYU24_29070	COG0206	Essential cell division protein that forms a contractile ring structure (Z ring) at the future cell division site. The regulation of the ring assembly controls the timing and the location of cell division. One of the functions of the FtsZ ring is to recruit other cell division proteins to the septum to produce a new cell wall between the dividing cells. Binds GTP and shows GTPase activity
RYU24_29090	COG1589	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic. May control correct divisome assembly
RYU24_29110	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
RYU24_29140	COG0189	ligase activity
RYU24_29180	COG0708	Exodeoxyribonuclease III
RYU24_29220	COG1182	Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity
RYU24_29240	COG3706	GGDEF domain
RYU24_29350	COG3150	esterase
RYU24_29370	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
RYU24_29380	COG2918	glutathione biosynthetic process
RYU24_29410	COG2733	membrane
RYU24_29490	COG0753	catalase activity
RYU24_29530	COG0560	Phosphoserine phosphatase
RYU24_29530	COG3830	Belongs to the UPF0237 family
RYU24_29560	COG0385	Bile acid
RYU24_29570	COG1335	isochorismatase
RYU24_29580	COG2814	Major facilitator Superfamily
RYU24_29590	COG2814	Major facilitator Superfamily
RYU24_29600	COG2814	Major facilitator Superfamily
RYU24_29610	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
RYU24_29630	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
RYU24_29640	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
RYU24_29650	COG5001	Diguanylate cyclase
RYU24_29650	COG3300	MHYT domain
RYU24_29660	COG2983	Belongs to the UPF0260 family
RYU24_29670	COG5487	UPF0391 membrane protein
RYU24_29690	COG3023	N-Acetylmuramoyl-L-alanine amidase
RYU24_29720	COG0689	Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates
RYU24_29730	COG1309	transcriptional regulator
RYU24_29740	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
RYU24_29750	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
RYU24_29760	COG0546	phosphoglycolate phosphatase activity
RYU24_29770	COG1028	Short-chain dehydrogenase reductase Sdr
RYU24_29820	COG1246	Belongs to the acetyltransferase family. ArgA subfamily
RYU24_29820	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
RYU24_29830	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
RYU24_29840	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
RYU24_29850	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
RYU24_29860	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
RYU24_29870	COG1116	anion transmembrane transporter activity
RYU24_29880	COG1309	transcriptional regulator
RYU24_29900	COG0196	riboflavin kinase activity
RYU24_29910	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)
RYU24_29930	COG1047	Peptidyl-prolyl cis-trans
RYU24_29960	COG2133	pyrroloquinoline quinone binding
RYU24_29970	COG3706	GGDEF domain
RYU24_29970	COG2203	Gaf domain
RYU24_29970	COG4251	negative regulation of phosphorylation
RYU24_29970	COG5001	Diguanylate cyclase
RYU24_30000	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)
RYU24_30010	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
RYU24_30020	COG2951	lytic endotransglycosylase activity
RYU24_30030	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
RYU24_30060	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
RYU24_30120	COG2814	Major facilitator Superfamily
RYU24_30130	COG0861	Integral membrane protein TerC family
RYU24_30140	COG0402	S-adenosylhomocysteine deaminase activity
RYU24_30170	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
RYU24_30220	COG0706	membrane insertase activity
RYU24_30230	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
RYU24_30240	COG0594	ribonuclease P activity