locus-tag	class	description
JO41_00055	COG3956	TIGRFAM MazG family protein
JO41_00070	COG1747	RNA polymerase binding
JO41_00070	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
JO41_00080	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
JO41_00105	COG1234	tRNA 3'-trailer cleavage
JO41_00115	COG4254	PFAM FecR protein
JO41_00125	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)
JO41_00130	COG0154	amidase activity
JO41_00135	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)
JO41_00145	COG2211	Major facilitator Superfamily
JO41_00165	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
JO41_00195	COG0228	four-way junction DNA binding
JO41_00200	COG1837	Belongs to the UPF0109 family
JO41_00205	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
JO41_00210	COG0336	Belongs to the RNA methyltransferase TrmD family
JO41_00215	COG0335	large ribosomal subunit rRNA binding
JO41_00235	COG0792	nuclease activity
JO41_00250	COG0495	leucyl-tRNA aminoacylation
JO41_00260	COG1773	rubredoxin
JO41_00275	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
JO41_00305	COG0343	queuine tRNA-ribosyltransferase activity
JO41_00320	COG0116	Belongs to the methyltransferase superfamily
JO41_00320	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
JO41_00325	COG2344	Modulates transcription in response to changes in cellular NADH NAD( ) redox state
JO41_00330	COG1413	lyase activity
JO41_00345	COG1482	cell wall glycoprotein biosynthetic process
JO41_00350	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
JO41_00355	COG1573	uracil-dna glycosylase
JO41_00365	COG2971	BadF BadG BcrA BcrD
JO41_00370	COG2103	Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate
JO41_00385	COG1653	transport
JO41_00390	COG1175	transmembrane transport
JO41_00395	COG0395	ABC-type sugar transport system, permease component
JO41_00405	COG4166	transmembrane transport
JO41_00410	COG1620	l-lactate permease
JO41_00415	COG1309	transcriptional regulator
JO41_00430	COG2978	secondary active p-aminobenzoyl-glutamate transmembrane transporter activity
JO41_00440	COG1653	transport
JO41_00475	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
JO41_00480	COG1598	PFAM Uncharacterised protein family UPF0150
JO41_00495	COG0441	Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
JO41_00500	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
JO41_00505	COG0297	glycogen (starch) synthase activity
JO41_00515	COG0523	cobalamin synthesis protein
JO41_00520	COG1272	protein, Hemolysin III
JO41_00525	COG0254	rRNA binding
JO41_00530	COG1158	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template
JO41_00545	COG0815	Transfers the fatty acyl group on membrane lipoproteins
JO41_00550	COG0776	regulation of translation
JO41_00555	COG0268	Binds directly to 16S ribosomal RNA
JO41_00575	COG0860	N-Acetylmuramoyl-L-alanine amidase
JO41_00600	COG0731	radical SAM domain protein
JO41_00615	COG2201	protein-glutamate methylesterase activity
JO41_00625	COG0835	chemotaxis
JO41_00630	COG2198	Histidine kinase
JO41_00630	COG0643	Histidine kinase
JO41_00645	COG3118	belongs to the thioredoxin family
JO41_00655	COG0617	tRNA 3'-terminal CCA addition
JO41_00660	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
JO41_00680	COG2388	GCN5-related N-acetyl-transferase
JO41_00685	COG2885	chlorophyll binding
JO41_00690	COG0450	alkyl hydroperoxide reductase
JO41_00700	COG0583	DNA-binding transcription factor activity
JO41_00705	COG0785	Cytochrome C biogenesis protein
JO41_00750	COG3328	transposase activity
JO41_00770	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
JO41_00795	COG4209	transmembrane transport
JO41_00800	COG0395	ABC-type sugar transport system, permease component
JO41_00815	COG2226	methyltransferase
JO41_00820	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
JO41_00835	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
JO41_00875	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
JO41_00885	COG0569	domain protein
JO41_00890	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
JO41_00910	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
JO41_00915	COG1067	ATP-dependent peptidase activity
JO41_00980	COG3142	Participates in the control of copper homeostasis
JO41_01005	COG2604	Protein of unknown function DUF115
JO41_01015	COG0405	Gamma-glutamyltransferase
JO41_01035	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
JO41_01040	COG0446	pyridine nucleotide-disulphide oxidoreductase
JO41_01050	COG1070	Carbohydrate kinase
JO41_01080	COG3549	Plasmid maintenance system killer
JO41_01110	COG0302	gtp cyclohydrolase
JO41_01110	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
JO41_01115	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
JO41_01150	COG2001	Belongs to the MraZ family
JO41_01155	COG0275	rRNA processing
JO41_01165	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
JO41_01170	COG0772	Belongs to the SEDS family
JO41_01175	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
JO41_01185	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
JO41_01195	COG2233	PERMEase
JO41_01210	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
JO41_01235	COG0187	DNA topoisomerase II activity
JO41_01240	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
JO41_01275	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)
JO41_01310	COG3579	cysteine-type endopeptidase activity
JO41_01320	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
JO41_01325	COG1220	this subunit has chaperone activity. The binding of ATP and its subsequent hydrolysis by HslU are essential for unfolding of protein substrates subsequently hydrolyzed by HslV. HslU recognizes the N-terminal part of its protein substrates and unfolds these before they are guided to HslV for hydrolysis
JO41_01330	COG1815	bacterial-type flagellum-dependent cell motility
JO41_01340	COG1677	Flagellar hook-basal body complex protein FliE
JO41_01345	COG1766	The M ring may be actively involved in energy transduction
JO41_01355	COG1317	bacterial-type flagellum organization
JO41_01360	COG1157	protein secretion by the type III secretion system
JO41_01385	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
JO41_01390	COG0840	transmembrane signaling receptor activity
JO41_01395	COG0571	ribonuclease III activity
JO41_01400	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
JO41_01405	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
JO41_01440	COG1921	L-seryl-tRNASec selenium transferase activity
JO41_01450	COG0840	transmembrane signaling receptor activity
JO41_01460	COG1838	Catalyzes the reversible hydration of fumarate to (S)- malate
JO41_01460	COG1951	Catalyzes the reversible hydration of fumarate to (S)- malate
JO41_01480	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
JO41_01495	COG0395	ABC-type sugar transport system, permease component
JO41_01500	COG1175	transmembrane transport
JO41_01510	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
JO41_01515	COG0328	RNA-DNA hybrid ribonuclease activity
JO41_01520	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
JO41_01525	COG0628	permease
JO41_01530	COG0363	glucosamine-6-phosphate deaminase activity
JO41_01535	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
JO41_01545	COG1636	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
JO41_01550	COG0488	(ABC) transporter
JO41_01585	COG0084	hydrolase, TatD family'
JO41_01590	COG1274	phosphoenolpyruvate carboxykinase (GTP) activity
JO41_01595	COG1464	Belongs to the NlpA lipoprotein family
JO41_01610	COG1477	protein flavinylation
JO41_01620	COG3588	fructose-bisphosphate aldolase
JO41_01675	COG0322	excinuclease ABC activity
JO41_01680	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
JO41_01700	COG0301	tRNA thio-modification
JO41_01710	COG2502	aspartate--ammonia ligase
JO41_01740	COG0217	transcriptional regulatory protein
JO41_01750	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
JO41_01760	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
JO41_01775	COG0049	tRNA binding
JO41_01780	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
JO41_01785	COG0739	heme binding
JO41_01785	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
JO41_01790	COG0085	RNA polymerase activity
JO41_01795	COG0222	ribosome binding
JO41_01800	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
JO41_01805	COG0081	regulation of translation
JO41_01810	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
JO41_01815	COG0250	Participates in transcription elongation, termination and antitermination
JO41_01820	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
JO41_01830	COG0267	Belongs to the bacterial ribosomal protein bL33 family
JO41_01845	COG1438	arginine binding
JO41_01850	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
JO41_01865	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
JO41_01870	COG2801	Transposase and inactivated derivatives
JO41_01875	COG0227	Belongs to the bacterial ribosomal protein bL28 family
JO41_01905	COG1129	ABC transporter
JO41_01940	COG0616	signal peptide processing
JO41_01945	COG4608	Belongs to the ABC transporter superfamily
JO41_01955	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
JO41_01960	COG0601	transmembrane transport
JO41_01985	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)
JO41_02050	COG1484	DNA-dependent DNA replication
JO41_02210	COG3701	Conjugal transfer protein
JO41_02225	COG3451	type IV secretory pathway VirB4
JO41_02250	COG4962	Type ii secretion system protein e
JO41_02280	COG0551	DNA topoisomerase type I activity
JO41_02280	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
JO41_02305	COG0739	heme binding
JO41_02320	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
JO41_02330	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
JO41_02335	COG2911	Protein conserved in bacteria
JO41_02350	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
JO41_02360	COG0739	heme binding
JO41_02375	COG1774	PSP1 C-terminal conserved region
JO41_02390	COG0169	Involved in the biosynthesis of the chorismate, which leads to the biosynthesis of aromatic amino acids. Catalyzes the reversible NADPH linked reduction of 3-dehydroshikimate (DHSA) to yield shikimate (SA)
JO41_02395	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
JO41_02400	COG0775	Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively
JO41_02425	COG0762	integral membrane protein
JO41_02435	COG0427	acetyl-CoA hydrolase
JO41_02440	COG1024	Enoyl-CoA hydratase
JO41_02445	COG1250	3-hydroxyacyl-CoA dehydrogenase
JO41_02450	COG1309	transcriptional regulator
JO41_02455	COG0574	Belongs to the PEP-utilizing enzyme family
JO41_02455	COG3848	Pyruvate phosphate dikinase
JO41_02460	COG0534	Mate efflux family protein
JO41_02470	COG2801	Transposase and inactivated derivatives
JO41_02475	COG2963	transposase activity
JO41_02490	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
JO41_02505	COG0167	dihydroorotate dehydrogenase activity
JO41_02515	COG1781	'de novo' pyrimidine nucleobase biosynthetic process
JO41_02520	COG0540	Belongs to the ATCase OTCase family
JO41_02525	COG0668	transmembrane transport
JO41_02555	COG1132	(ABC) transporter
JO41_02560	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)
JO41_02565	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
JO41_02620	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
JO41_02630	COG1180	Activation of pyruvate formate-lyase under anaerobic conditions by generation of an organic free radical, using S- adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine
JO41_02640	COG1882	Formate acetyltransferase
JO41_02650	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)
JO41_02655	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
JO41_02660	COG4251	negative regulation of phosphorylation
JO41_02660	COG3706	GGDEF domain
JO41_02660	COG5001	Diguanylate cyclase
JO41_02660	COG2203	Gaf domain
JO41_02665	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
JO41_02670	COG0205	6-phosphofructokinase activity
JO41_02680	COG0124	histidyl-tRNA synthetase
JO41_02695	COG1729	Mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division
JO41_02705	COG0840	transmembrane signaling receptor activity
JO41_02740	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
JO41_02745	COG1699	Binds to the C-terminal region of flagellin, which is implicated in polymerization, and participates in the assembly of the flagellum
JO41_02750	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
JO41_02755	COG3437	response regulator, receiver
JO41_02755	COG2770	Histidine kinase
JO41_02760	COG1214	PFAM Peptidase M22, glycoprotease
JO41_02765	COG0802	atpase or kinase
JO41_02770	COG0564	pseudouridine synthase activity
JO41_02795	COG0297	glycogen (starch) synthase activity
JO41_02830	COG1027	Aspartate ammonia-lyase
JO41_02835	COG0295	cytidine deaminase activity
JO41_02845	COG0739	heme binding
JO41_02895	COG0556	nucleotide-excision repair
JO41_02900	COG0709	Synthesizes selenophosphate from selenide and ATP
JO41_02945	COG1744	ABC transporter substrate-binding protein PnrA-like
JO41_03005	COG1418	mRNA catabolic process
JO41_03010	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
JO41_03020	COG1475	DNA binding
JO41_03025	COG1192	Involved in chromosome partitioning
JO41_03030	COG0466	ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner
JO41_03080	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
JO41_03090	COG1442	glycosyl transferase family 8
JO41_03090	COG1216	Glycosyl transferase, family 2
JO41_03140	COG1373	ATPase (AAA superfamily
JO41_03175	COG1362	aminopeptidase activity
JO41_03180	COG3633	Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
JO41_03225	COG1181	Belongs to the D-alanine--D-alanine ligase family
JO41_03230	COG1966	Carbon starvation protein
JO41_03240	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
JO41_03245	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
JO41_03270	COG1744	ABC transporter substrate-binding protein PnrA-like
JO41_03280	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
JO41_03285	COG3876	Protein conserved in bacteria
JO41_03295	COG2239	Acts as a magnesium transporter
JO41_03300	COG0170	dolichyl monophosphate biosynthetic process
JO41_03310	COG2252	PERMEase
JO41_03350	COG0733	neurotransmitter:sodium symporter activity
JO41_03355	COG0457	Tetratricopeptide repeat
JO41_03360	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
JO41_03365	COG1384	Belongs to the class-I aminoacyl-tRNA synthetase family
JO41_03375	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
JO41_03380	COG1493	Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr). The two antagonistic activities of HprK P are regulated by several intracellular metabolites, which change their concentration in response to the absence or presence of rapidly metabolisable carbon sources (glucose, fructose, etc.) in the growth medium. Therefore, by controlling the phosphorylation state of HPr, HPrK P is a sensor enzyme that plays a major role in the regulation of carbon metabolism and sugar transport it mediates carbon catabolite repression (CCR), and regulates PTS-catalyzed carbohydrate uptake and inducer exclusion
JO41_03395	COG0058	SHG alpha-glucan phosphorylase activity
JO41_03400	COG0105	UTP biosynthetic process
JO41_03405	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
JO41_03415	COG1040	competence protein
JO41_03420	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
JO41_03425	COG0342	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA
JO41_03430	COG1862	Preprotein translocase
JO41_03435	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
JO41_03445	COG1847	R3H domain protein
JO41_03450	COG0706	membrane insertase activity
JO41_03460	COG0230	Belongs to the bacterial ribosomal protein bL34 family
JO41_03485	COG1351	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor, and NAD(P)H and FADH(2) as the reductant
JO41_03490	COG1472	Belongs to the glycosyl hydrolase 3 family
JO41_03495	COG0492	ferredoxin-NADP+ reductase activity
JO41_03500	COG0280	phosphate acetyltransferase
JO41_03525	COG1151	hydroxylamine reductase activity
JO41_03530	COG0459	protein refolding
JO41_03550	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
JO41_03555	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
JO41_03560	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
JO41_03560	COG1345	Required for morphogenesis and for the elongation of the flagellar filament by facilitating polymerization of the flagellin monomers at the tip of growing filament. Forms a capping structure, which prevents flagellin subunits (transported through the central channel of the flagellum) from leaking out without polymerization at the distal end
JO41_03575	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
JO41_03590	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)
JO41_03630	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
JO41_03635	COG0728	peptidoglycan biosynthetic process
JO41_03655	COG0803	Belongs to the bacterial solute-binding protein 9 family
JO41_03675	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)
JO41_03680	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
JO41_03760	COG4443	Transcriptional Coactivator p15 (PC4)
JO41_03765	COG0840	transmembrane signaling receptor activity
JO41_03775	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
JO41_03775	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
JO41_03780	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
JO41_03800	COG1309	transcriptional regulator
JO41_03825	COG1647	Serine aminopeptidase, S33
JO41_03830	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
JO41_03835	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
JO41_03840	COG1028	Short-chain dehydrogenase reductase Sdr
JO41_03845	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
JO41_03850	COG0332	Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids
JO41_03865	COG0290	IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins
JO41_03870	COG0291	Belongs to the bacterial ribosomal protein bL35 family
JO41_03875	COG0292	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit
JO41_03885	COG3027	Activator of cell division through the inhibition of FtsZ GTPase activity, therefore promoting FtsZ assembly into bundles of protofilaments necessary for the formation of the division Z ring. It is recruited early at mid-cell but it is not essential for cell division
JO41_03890	COG1671	Belongs to the UPF0178 family
JO41_03895	COG3437	response regulator, receiver
JO41_03900	COG2195	Cleaves the N-terminal amino acid of tripeptides
JO41_03905	COG1115	amino acid carrier protein
JO41_03910	COG5016	pyruvate
JO41_03910	COG0511	ligase activity, forming carbon-carbon bonds
JO41_03915	COG1472	Belongs to the glycosyl hydrolase 3 family
JO41_03935	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
JO41_03950	COG0778	Nitroreductase
JO41_03955	COG1131	(ABC) transporter
JO41_03975	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
JO41_04020	COG1963	PFAM Acid phosphatase vanadium-dependent haloperoxidase related
JO41_04025	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
JO41_04040	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
JO41_04050	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
JO41_04050	COG3608	succinylglutamate desuccinylase aspartoacylase
JO41_04065	COG1121	(ABC) transporter
JO41_04070	COG1639	'signal transduction protein
JO41_04080	COG0543	2 iron, 2 sulfur cluster binding
JO41_04095	COG0733	neurotransmitter:sodium symporter activity
JO41_04105	COG1744	ABC transporter substrate-binding protein PnrA-like
JO41_04110	COG1129	ABC transporter
JO41_04115	COG4603	Belongs to the binding-protein-dependent transport system permease family
JO41_04125	COG4942	peptidase
JO41_04145	COG3177	Filamentation induced by cAMP protein fic
JO41_04155	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
JO41_04180	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
JO41_04185	COG0542	response to heat
JO41_04205	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
JO41_04215	COG0450	alkyl hydroperoxide reductase
JO41_04220	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
JO41_04265	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)
JO41_04295	COG0793	Belongs to the peptidase S41A family
JO41_04310	COG4857	Catalyzes the phosphorylation of methylthioribose into methylthioribose-1-phosphate
JO41_04350	COG0203	ribosomal protein L17
JO41_04355	COG0202	RNA polymerase activity
JO41_04360	COG0100	Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome
JO41_04365	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
JO41_04370	COG0257	Belongs to the bacterial ribosomal protein bL36 family
JO41_04380	COG0200	Binds to the 23S rRNA
JO41_04390	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
JO41_04395	COG0256	This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance
JO41_04400	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
JO41_04405	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
JO41_04410	COG0094	This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits
JO41_04415	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
JO41_04420	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
JO41_04425	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
JO41_04430	COG0255	Belongs to the universal ribosomal protein uL29 family
JO41_04435	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
JO41_04440	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
JO41_04445	COG0091	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
JO41_04450	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
JO41_04455	COG0090	One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity
JO41_04460	COG0089	rRNA binding
JO41_04465	COG0088	Forms part of the polypeptide exit tunnel
JO41_04470	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
JO41_04475	COG0051	transcription antitermination factor activity, RNA binding
JO41_04480	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
JO41_04500	COG0072	phenylalanine-tRNA ligase activity
JO41_04520	COG1968	undecaprenyl-diphosphatase activity
JO41_04525	COG1674	ftsk spoiiie
JO41_04540	COG0781	Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons
JO41_04545	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
JO41_04555	COG0084	hydrolase, TatD family'
JO41_04565	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
JO41_04615	COG0714	Associated with various cellular activities
JO41_04655	COG2425	protein containing a von Willebrand factor type A (vWA) domain
JO41_04665	COG1373	ATPase (AAA superfamily
JO41_04675	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
JO41_04685	COG3842	ATPase activity
JO41_04690	COG1178	ABC-type Fe3 transport system permease component
JO41_04695	COG3842	ATPase activity
JO41_04705	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
JO41_04715	COG4750	Nucleotidyl transferase
JO41_04720	COG2211	Major facilitator Superfamily
JO41_04730	COG1640	4-alpha-glucanotransferase
JO41_04750	COG0019	diaminopimelate decarboxylase activity
JO41_04755	COG0716	FMN binding
JO41_04765	COG1956	GAF domain-containing protein
JO41_04780	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
JO41_04785	COG1136	(ABC) transporter
JO41_04790	COG1136	(ABC) transporter
JO41_04790	COG0577	efflux transmembrane transporter activity
JO41_04795	COG1136	(ABC) transporter
JO41_04795	COG0577	efflux transmembrane transporter activity
JO41_04830	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
JO41_04840	COG1132	(ABC) transporter
JO41_04845	COG4115	mRNA cleavage
JO41_04900	COG2378	regulation of single-species biofilm formation
JO41_04910	COG1132	(ABC) transporter
JO41_04915	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
JO41_04920	COG1162	GTPase activity
JO41_04925	COG1309	transcriptional regulator
JO41_04940	COG1132	(ABC) transporter
JO41_04945	COG1132	(ABC) transporter
JO41_04950	COG1129	ABC transporter
JO41_04970	COG1132	(ABC) transporter
JO41_04995	COG2217	Heavy metal translocating P-type atpase
JO41_05005	COG0640	Transcriptional regulator
JO41_05010	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
JO41_05030	COG1529	Aldehyde oxidase and xanthine dehydrogenase
JO41_05035	COG0326	Molecular chaperone. Has ATPase activity
JO41_05040	COG0012	GTP binding
JO41_05045	COG2183	response to ionizing radiation
JO41_05060	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)
JO41_05065	COG0423	glycine-tRNA ligase activity
JO41_05075	COG0584	glycerophosphoryl diester phosphodiesterase
JO41_05080	COG2949	membrane
JO41_05110	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
JO41_05110	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
JO41_05120	COG0116	Belongs to the methyltransferase superfamily
JO41_05125	COG0701	Predicted permease
JO41_05200	COG0425	Belongs to the sulfur carrier protein TusA family
JO41_05210	COG0709	Synthesizes selenophosphate from selenide and ATP
JO41_05230	COG0488	(ABC) transporter
JO41_05250	COG0840	transmembrane signaling receptor activity
JO41_05260	COG0024	Methionine aminopeptidase
JO41_05265	COG0484	heat shock protein binding
JO41_05285	COG3706	GGDEF domain
JO41_05290	COG5001	Diguanylate cyclase
JO41_05295	COG1757	Na H antiporter
JO41_05315	COG0863	Belongs to the N(4) N(6)-methyltransferase family
JO41_05410	COG2089	acid synthase
JO41_05415	COG0592	DNA-directed DNA polymerase activity
JO41_05440	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
JO41_05450	COG0545	Peptidyl-prolyl cis-trans isomerase
JO41_05455	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
JO41_05490	COG2820	Catalyzes the reversible phosphorylytic cleavage of uridine and deoxyuridine to uracil and ribose- or deoxyribose-1- phosphate. The produced molecules are then utilized as carbon and energy sources or in the rescue of pyrimidine bases for nucleotide synthesis
JO41_05495	COG0739	heme binding
JO41_05500	COG1686	Belongs to the peptidase S11 family
JO41_05505	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
JO41_05520	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
JO41_05525	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
JO41_05595	COG0828	Belongs to the bacterial ribosomal protein bS21 family
JO41_05620	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
JO41_05675	COG2204	response regulator
JO41_05685	COG1028	Short-chain dehydrogenase reductase Sdr
JO41_05695	COG0517	IMP dehydrogenase activity
JO41_05695	COG0516	GMP reductase activity
JO41_05700	COG0205	6-phosphofructokinase activity
JO41_05710	COG3842	ATPase activity
JO41_05715	COG1176	ABC-type spermidine putrescine transport system, permease component I
JO41_05720	COG1177	transmembrane transport
JO41_05750	COG1120	ATPase activity
JO41_05795	COG0156	8-amino-7-oxononanoate synthase activity
JO41_05800	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
JO41_05810	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
JO41_05820	COG2759	Belongs to the formate--tetrahydrofolate ligase family
JO41_05825	COG1114	Component of the transport system for branched-chain amino acids
JO41_05830	COG0840	transmembrane signaling receptor activity
JO41_05835	COG0739	heme binding
JO41_05845	COG0237	dephospho-CoA kinase activity
JO41_05865	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)
JO41_05885	COG3855	fructose 1,6-bisphosphate 1-phosphatase activity
JO41_05890	COG1640	4-alpha-glucanotransferase
JO41_05895	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
JO41_05965	COG1983	PspC domain protein
JO41_05975	COG1695	Transcriptional regulator
JO41_05990	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
JO41_05995	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
JO41_06000	COG0445	tRNA wobble uridine modification
JO41_06010	COG2255	four-way junction helicase activity
JO41_06020	COG0822	iron-sulfur transferase activity
JO41_06030	COG0826	peptidase U32
JO41_06065	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
JO41_06070	COG0694	Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins
JO41_06090	COG0739	heme binding
JO41_06125	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
JO41_06160	COG4974	Belongs to the 'phage' integrase family
JO41_06185	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
JO41_06210	COG0840	transmembrane signaling receptor activity
JO41_06220	COG0737	Belongs to the 5'-nucleotidase family
JO41_06230	COG3263	regulation of cellular component size
JO41_06260	COG0351	phosphomethylpyrimidine kinase
JO41_06270	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
JO41_06270	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
JO41_06285	COG0745	RESPONSE REGULATOR receiver
JO41_06290	COG5002	protein histidine kinase activity
JO41_06290	COG3850	Histidine kinase
JO41_06300	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
JO41_06310	COG2011	ABC-type metal ion transport system permease component
JO41_06320	COG1879	ABC-type sugar transport system periplasmic component
JO41_06330	COG1172	Belongs to the binding-protein-dependent transport system permease family
JO41_06345	COG1070	Carbohydrate kinase
JO41_06360	COG1175	transmembrane transport
JO41_06365	COG0395	ABC-type sugar transport system, permease component
JO41_06370	COG0513	Belongs to the DEAD box helicase family
JO41_06380	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
JO41_06430	COG0039	L-malate dehydrogenase activity
JO41_06435	COG0281	malic enzyme
JO41_06445	COG0629	single-stranded DNA binding
JO41_06490	COG0192	Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme
JO41_06500	COG1193	negative regulation of DNA recombination
JO41_06520	COG1978	Selenoprotein B, glycine betaine sarcosine D-proline reductase family
JO41_06530	COG0613	PHP domain protein
JO41_06540	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
JO41_06710	COG0825	malonyl-CoA metabolic process
JO41_06715	COG0777	Component of the acetyl coenzyme A carboxylase (ACC) complex. Biotin carboxylase (BC) catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the transcarboxylase to acetyl-CoA to form malonyl- CoA
JO41_06725	COG0511	ligase activity, forming carbon-carbon bonds
JO41_06730	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
JO41_06735	COG4656	Part of a membrane complex involved in electron transport
JO41_06740	COG4658	electron transport chain
JO41_06745	COG4659	FMN binding
JO41_06750	COG4660	Part of a membrane complex involved in electron transport
JO41_06755	COG4657	Part of a membrane complex involved in electron transport
JO41_06765	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
JO41_06770	COG1108	ABC-type Mn2 Zn2 transport systems permease components
JO41_06775	COG0078	Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline
JO41_06780	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
JO41_06815	COG1512	COG1512 Beta-propeller domains of methanol dehydrogenase type
JO41_06825	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
JO41_06830	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
JO41_06845	COG0653	protein targeting
JO41_06910	COG0698	ribose 5-phosphate isomerase
JO41_06925	COG1733	regulation of RNA biosynthetic process
JO41_06970	COG1722	exodeoxyribonuclease VII activity
JO41_06975	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
JO41_06980	COG0433	COG0433 Predicted ATPase
JO41_06995	COG1193	negative regulation of DNA recombination
JO41_07015	COG1254	Belongs to the acylphosphatase family
JO41_07030	COG2217	Heavy metal translocating P-type atpase
JO41_07055	COG3697	Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase
JO41_07055	COG1767	triphosphoribosyl-dephospho-CoA synthase activity
JO41_07080	COG3052	prosthetic group binding
JO41_07085	COG3053	Acetylation of prosthetic group (2-(5''-phosphoribosyl)- 3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase
JO41_07115	COG1160	GTP binding
JO41_07130	COG1191	sigma factor activity
JO41_07150	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
JO41_07175	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
JO41_07180	COG0180	Tryptophanyl-tRNA synthetase
JO41_07195	COG0670	Belongs to the BI1 family
JO41_07220	COG2604	Protein of unknown function DUF115
JO41_07225	COG0768	penicillin binding
JO41_07505	COG0494	nUDIX hydrolase
JO41_07530	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
JO41_07535	COG0457	Tetratricopeptide repeat
JO41_07550	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
JO41_07555	COG1066	DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function
JO41_07575	COG0402	S-adenosylhomocysteine deaminase activity
JO41_07580	COG1001	Belongs to the metallo-dependent hydrolases superfamily. Adenine deaminase family
JO41_07585	COG1529	Aldehyde oxidase and xanthine dehydrogenase
JO41_07590	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
JO41_07605	COG2207	Transcriptional regulator
JO41_07605	COG3708	Transcriptional regulator
JO41_07620	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
JO41_07635	COG0635	Involved in the biosynthesis of porphyrin-containing compound
JO41_07645	COG0691	Required for rescue of stalled ribosomes mediated by trans-translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene
JO41_07655	COG1199	ATP-dependent helicase activity
JO41_07675	COG0840	transmembrane signaling receptor activity
JO41_07685	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
JO41_07715	COG1269	ATP hydrolysis coupled proton transport
JO41_07720	COG1394	ATPase activity, coupled to movement of substances
JO41_07725	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
JO41_07730	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
JO41_07740	COG1390	Produces ATP from ADP in the presence of a proton gradient across the membrane
JO41_07755	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)
JO41_07760	COG0346	lactoylglutathione lyase activity
JO41_07765	COG1881	PFAM PEBP family protein
JO41_07770	COG3340	Belongs to the peptidase S51 family
JO41_07860	COG2249	NAD(P)H dehydrogenase (quinone) activity
JO41_07865	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
JO41_07870	COG0483	inositol monophosphate 1-phosphatase activity
JO41_07875	COG3842	ATPase activity
JO41_07895	COG1846	Transcriptional regulator
JO41_07915	COG1512	COG1512 Beta-propeller domains of methanol dehydrogenase type
JO41_07920	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
JO41_07920	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
JO41_07920	COG0674	pyruvate-flavodoxin oxidoreductase activity
JO41_07920	COG1013	pyruvate-flavodoxin oxidoreductase activity
JO41_07925	COG0513	Belongs to the DEAD box helicase family
JO41_07930	COG2195	Cleaves the N-terminal amino acid of tripeptides
JO41_07950	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
JO41_07965	COG0576	Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ
JO41_07970	COG0443	Heat shock 70 kDa protein
JO41_07975	COG0484	heat shock protein binding
JO41_08000	COG1205	dead DEAH box helicase
JO41_08000	COG1111	helicase
JO41_08020	COG0617	tRNA 3'-terminal CCA addition
JO41_08025	COG1194	a g-specific adenine glycosylase
JO41_08030	COG1102	Psort location Cytoplasmic, score
JO41_08040	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
JO41_08060	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
JO41_08375	COG0629	single-stranded DNA binding
JO41_08415	COG0544	peptidyl-prolyl cis-trans isomerase activity
JO41_08420	COG0740	serine-type endopeptidase activity
JO41_08425	COG1219	ATP-dependent specificity component of the Clp protease. It directs the protease to specific substrates. Can perform chaperone functions in the absence of ClpP
JO41_08435	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
JO41_08455	COG2267	carboxylic ester hydrolase activity
JO41_08470	COG0481	GTPase activity
JO41_08475	COG0018	arginyl-trna synthetase
JO41_08490	COG2235	arginine
JO41_08495	COG0078	Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline
JO41_08500	COG0549	Belongs to the carbamate kinase family
JO41_08505	COG1288	antiporter activity
JO41_08515	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
JO41_08520	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
JO41_08525	COG0017	Asparaginyl-tRNA synthetase
JO41_08540	COG1733	regulation of RNA biosynthetic process
JO41_08615	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
JO41_08630	COG3118	belongs to the thioredoxin family
JO41_08635	COG1692	metallophosphoesterase
JO41_08640	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
JO41_08650	COG0719	Fe-S assembly protein
JO41_08700	COG1570	exodeoxyribonuclease VII activity
JO41_08715	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
JO41_08720	COG0740	serine-type endopeptidase activity
JO41_08745	COG0681	Belongs to the peptidase S26 family
JO41_08755	COG0840	transmembrane signaling receptor activity
JO41_08770	COG0820	rRNA (adenine-C2-)-methyltransferase activity
JO41_08780	COG2885	chlorophyll binding
JO41_08785	COG0300	oxidoreductase activity
JO41_08795	COG2887	Belongs to the helicase family. UvrD subfamily
JO41_08815	COG1960	acyl-CoA dehydrogenase activity
JO41_08820	COG1012	belongs to the aldehyde dehydrogenase family
JO41_08845	COG2039	Removes 5-oxoproline from various penultimate amino acid residues except L-proline
JO41_08875	COG4786	Flagellar basal body rod
JO41_08885	COG3951	Flagellar rod assembly protein muramidase FlgJ
JO41_08900	COG1120	ATPase activity
JO41_08935	COG0223	Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus
JO41_08940	COG0242	peptide deformylase activity
JO41_08960	COG0148	phosphopyruvate hydratase activity
JO41_08965	COG0251	oxidation-reduction process
JO41_08980	COG1047	Peptidyl-prolyl cis-trans
JO41_08985	COG0261	This protein binds to 23S rRNA in the presence of protein L20
JO41_08995	COG0211	Belongs to the bacterial ribosomal protein bL27 family
JO41_09000	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
JO41_09005	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
JO41_09030	COG0779	Required for maturation of 30S ribosomal subunits
JO41_09040	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
JO41_09045	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
JO41_09050	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
JO41_09055	COG0196	riboflavin kinase activity
JO41_09060	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
JO41_09065	COG1185	polyribonucleotide nucleotidyltransferase activity
JO41_09070	COG0756	dUTP diphosphatase activity
JO41_09085	COG0840	transmembrane signaling receptor activity
JO41_09090	COG1253	flavin adenine dinucleotide binding
JO41_09105	COG3290	protein histidine kinase activity
JO41_09105	COG0840	transmembrane signaling receptor activity
JO41_09115	COG0546	phosphoglycolate phosphatase activity
JO41_09125	COG1609	Transcriptional regulator
JO41_09130	COG1129	ABC transporter
JO41_09150	COG1187	pseudouridine synthase activity
JO41_09170	COG3639	organic phosphonate transmembrane transporter activity
JO41_09175	COG3638	Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system
JO41_09190	COG0813	purine-nucleoside phosphorylase activity
JO41_09245	COG2703	oxygen carrier activity
JO41_09250	COG1523	belongs to the glycosyl hydrolase 13 family
JO41_09255	COG2182	Extracellular solute-binding protein
JO41_09270	COG1175	transmembrane transport
JO41_09275	COG3833	ABC-type maltose transport systems, permease component
JO41_09290	COG0210	DNA helicase
JO41_09305	COG1979	alcohol dehydrogenase
JO41_09320	COG0698	ribose 5-phosphate isomerase
JO41_09335	COG1132	(ABC) transporter
JO41_09435	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
JO41_09450	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
JO41_09455	COG1360	Flagellar Motor Protein
JO41_09460	COG1580	Controls the rotational direction of flagella during chemotaxis
JO41_09465	COG1868	FliM is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
JO41_09470	COG1776	CheC inhibitor of MCP methylation
JO41_09470	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
JO41_09480	COG1338	Plays a role in the flagellum-specific transport system
JO41_09485	COG1987	bacterial-type flagellum assembly
JO41_09495	COG1377	Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
JO41_09500	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
JO41_09505	COG1419	protein localization to endoplasmic reticulum
JO41_09510	COG0455	bacterial-type flagellum organization
JO41_09515	COG1215	transferase activity, transferring glycosyl groups
JO41_09520	COG0534	Mate efflux family protein
JO41_09530	COG0557	exoribonuclease II activity
JO41_09535	COG1362	aminopeptidase activity
JO41_09545	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
JO41_09545	COG3608	succinylglutamate desuccinylase aspartoacylase
JO41_09550	COG0587	DNA-directed DNA polymerase activity
JO41_09560	COG4211	Belongs to the binding-protein-dependent transport system permease family
JO41_09565	COG1129	ABC transporter
JO41_09570	COG1879	ABC-type sugar transport system periplasmic component
JO41_09575	COG0525	valine-tRNA ligase activity
JO41_09595	COG2604	Protein of unknown function DUF115
JO41_09620	COG4974	Belongs to the 'phage' integrase family
JO41_09625	COG0551	DNA topoisomerase type I activity
JO41_09625	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
JO41_09630	COG0758	DNA mediated transformation
JO41_09645	COG0475	glutathione-regulated potassium exporter activity
JO41_09655	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
JO41_09660	COG0672	)-iron permease
JO41_09665	COG3470	protein probably involved in high-affinity Fe2 transport
JO41_09680	COG1136	(ABC) transporter
JO41_09680	COG0577	efflux transmembrane transporter activity
JO41_09685	COG1136	(ABC) transporter
JO41_09720	COG2226	methyltransferase
JO41_09765	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
JO41_09770	COG0840	transmembrane signaling receptor activity
JO41_09780	COG0514	ATP-dependent DNA helicase (RecQ)
JO41_09790	COG0737	Belongs to the 5'-nucleotidase family
JO41_09800	COG1022	Amp-dependent synthetase and ligase
JO41_09805	COG0537	adenosine 5'-monophosphoramidase activity
JO41_09810	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
JO41_09815	COG2088	sporulation resulting in formation of a cellular spore
JO41_09825	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
JO41_09830	COG0037	tRNA processing
JO41_09835	COG0457	Tetratricopeptide repeat
JO41_09855	COG0840	transmembrane signaling receptor activity
JO41_09860	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
JO41_09865	COG0786	glutamate:sodium symporter activity
JO41_09880	COG1883	Na -transporting methylmalonyl-CoA oxaloacetate decarboxylase, beta subunit
JO41_09885	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
JO41_09890	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
JO41_09895	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
JO41_09900	COG0786	glutamate:sodium symporter activity
JO41_09905	COG1924	4 iron, 4 sulfur cluster binding
JO41_09910	COG1775	2-hydroxyglutaryl-CoA dehydratase, D-component
JO41_09915	COG1775	2-hydroxyglutaryl-CoA dehydratase, D-component
JO41_09925	COG0735	belongs to the Fur family
JO41_09940	COG0494	nUDIX hydrolase
JO41_09960	COG1480	7TM receptor with intracellular HD hydrolase
JO41_09965	COG0319	Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA
JO41_09995	COG0426	domain, Protein
JO41_09995	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
JO41_10000	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
JO41_10010	COG0318	PFAM AMP-dependent synthetase and ligase
JO41_10015	COG1283	sodium-dependent phosphate transmembrane transporter activity
JO41_10020	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)
JO41_10020	COG0574	Belongs to the PEP-utilizing enzyme family
JO41_10065	COG0441	Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
JO41_10075	COG0126	phosphoglycerate kinase activity
JO41_10115	COG2201	protein-glutamate methylesterase activity
JO41_10130	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
JO41_10135	COG0812	UDP-N-acetylmuramate dehydrogenase activity
JO41_10145	COG0215	cysteine-tRNA ligase activity
JO41_10165	COG0528	UMP kinase activity
JO41_10170	COG0484	heat shock protein binding
JO41_10175	COG0361	One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre- initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initation complex
JO41_10195	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
JO41_10215	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
JO41_10220	COG3118	belongs to the thioredoxin family
JO41_10225	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
JO41_10225	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
JO41_10250	COG0218	Necessary for normal cell division and for the maintenance of normal septation
JO41_10255	COG0166	Belongs to the GPI family
JO41_10280	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
JO41_10290	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
JO41_10310	COG2304	oxidoreductase activity
JO41_10320	COG0183	Belongs to the thiolase family
JO41_10335	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
JO41_10335	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
JO41_10340	COG1129	ABC transporter
JO41_10355	COG4977	sequence-specific DNA binding
JO41_10355	COG1917	Cupin 2, conserved barrel domain protein
JO41_10370	COG1129	ABC transporter
JO41_10410	COG1132	(ABC) transporter
JO41_10430	COG1129	ABC transporter
JO41_10475	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
JO41_10480	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
JO41_10485	COG0817	Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group
JO41_10510	COG0519	Catalyzes the synthesis of GMP from XMP
JO41_10515	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
JO41_10530	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
JO41_10535	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
JO41_10560	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
JO41_10575	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
JO41_10580	COG1472	Belongs to the glycosyl hydrolase 3 family
JO41_10585	COG3876	Protein conserved in bacteria
JO41_10595	COG2885	chlorophyll binding
JO41_10600	COG0741	lytic transglycosylase activity
JO41_10600	COG1388	LysM domain
JO41_10650	COG3189	MarR family transcriptional regulator
JO41_10675	COG0358	DNA primase activity
JO41_10680	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
JO41_10700	COG1077	Cell shape determining protein MreB Mrl
JO41_10715	COG0768	penicillin binding
JO41_10720	COG0772	Belongs to the SEDS family
JO41_10730	COG0563	adenylate kinase activity
JO41_10735	COG0486	Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34
JO41_10740	COG1131	(ABC) transporter
JO41_10760	COG2357	RelA SpoT domain protein
JO41_10765	COG1132	(ABC) transporter
JO41_10820	COG1301	dicarboxylic acid transport
JO41_10840	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
JO41_10850	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
JO41_10860	COG0455	bacterial-type flagellum organization
JO41_10870	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
JO41_10875	COG0330	HflC and HflK could
JO41_10880	COG0330	HflC and HflK could
JO41_10905	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
JO41_10920	COG0564	pseudouridine synthase activity
JO41_10930	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
JO41_10960	COG2114	Pfam Adenylate and Guanylate cyclase catalytic domain
JO41_10965	COG1132	(ABC) transporter
JO41_10970	COG4988	ABC transporter
JO41_10975	COG3842	ATPase activity
JO41_11000	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
JO41_11000	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
JO41_11000	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
JO41_11005	COG0504	CTP synthase activity
JO41_11030	COG0482	sulfurtransferase activity
JO41_11040	COG0127	Pyrophosphatase that catalyzes the hydrolysis of nucleoside triphosphates to their monophosphate derivatives, with a high preference for the non-canonical purine nucleotides XTP (xanthosine triphosphate), dITP (deoxyinosine triphosphate) and ITP. Seems to function as a house-cleaning enzyme that removes non-canonical purine nucleotides from the nucleotide pool, thus preventing their incorporation into DNA RNA and avoiding chromosomal lesions
JO41_11045	COG0378	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG
JO41_11050	COG3840	Part of the ABC transporter complex ThiBPQ involved in thiamine import. Responsible for energy coupling to the transport system
JO41_11060	COG0318	PFAM AMP-dependent synthetase and ligase
JO41_11065	COG0791	NLP P60 protein
JO41_11070	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
JO41_11100	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
JO41_11140	COG0497	DNA recombination
JO41_11145	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
JO41_11150	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
JO41_11155	COG0835	chemotaxis
JO41_11165	COG5341	Protein conserved in bacteria
JO41_11180	COG0442	prolyl-tRNA aminoacylation
JO41_11190	COG0424	maF-like protein
JO41_11195	COG0052	Belongs to the universal ribosomal protein uS2 family
JO41_11200	COG0264	Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome
JO41_11205	COG0233	cytoplasmic translational termination
JO41_11210	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
JO41_11215	COG0575	Belongs to the CDS family
JO41_11220	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
JO41_11225	COG0750	zinc metalloprotease
JO41_11240	COG1309	transcriptional regulator
JO41_11250	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)
JO41_11275	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
JO41_11280	COG0714	Associated with various cellular activities
JO41_11295	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
JO41_11300	COG2890	protein-(glutamine-N5) methyltransferase activity
JO41_11305	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
JO41_11310	COG0666	response to abiotic stimulus
JO41_11320	COG3330	Domain of unknown function (DUF4912)
JO41_11325	COG1543	Belongs to the glycosyl hydrolase 57 family
JO41_11330	COG0588	phosphoglycerate mutase activity
JO41_11335	COG0178	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate
JO41_11345	COG1131	(ABC) transporter
JO41_11375	COG1760	l-serine dehydratase
JO41_11380	COG1760	l-serine dehydratase
JO41_11385	COG0149	triose-phosphate isomerase activity
JO41_11400	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
JO41_11405	COG2011	ABC-type metal ion transport system permease component
JO41_11415	COG1473	amidohydrolase
JO41_11450	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
JO41_11465	COG1136	(ABC) transporter
JO41_11465	COG0577	efflux transmembrane transporter activity
JO41_11470	COG1136	(ABC) transporter
JO41_11480	COG1536	FliG is one of three proteins (FliG, FliN, FliM) that forms the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
JO41_11495	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
JO41_11500	COG1509	lysine 2,3-aminomutase activity
JO41_11535	COG0193	aminoacyl-tRNA hydrolase activity
JO41_11540	COG0468	Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage
JO41_11550	COG1136	(ABC) transporter
JO41_11570	COG0533	Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaE and TsaB. TsaD likely plays a direct catalytic role in this reaction
JO41_11610	COG1222	aaa ATPase
JO41_11625	COG1132	(ABC) transporter
JO41_11645	COG1129	ABC transporter
JO41_11650	COG3633	Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
JO41_11655	COG3681	Belongs to the UPF0597 family
JO41_11675	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
JO41_11690	COG1132	(ABC) transporter
JO41_11700	COG1704	LemA family
JO41_11715	COG1132	(ABC) transporter
JO41_11720	COG1132	(ABC) transporter
JO41_11725	COG1802	Transcriptional regulator
JO41_11730	COG0632	four-way junction helicase activity
JO41_11735	COG1739	Uncharacterized protein family UPF0029
JO41_11740	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
JO41_11745	COG0707	Cell wall formation. Catalyzes the transfer of a GlcNAc subunit on undecaprenyl-pyrophosphoryl-MurNAc-pentapeptide (lipid intermediate I) to form undecaprenyl-pyrophosphoryl-MurNAc- (pentapeptide)GlcNAc (lipid intermediate II)
JO41_11755	COG0470	DNA polymerase III
JO41_11770	COG0305	Participates in initiation and elongation during chromosome replication
JO41_11775	COG0359	binds to the 23S rRNA
JO41_11780	COG0238	Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
JO41_11785	COG0629	single-stranded DNA binding
JO41_11790	COG0360	Binds together with S18 to 16S ribosomal RNA
JO41_11795	COG0523	cobalamin synthesis protein
JO41_11800	COG0534	Mate efflux family protein
JO41_11815	COG0761	Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis
JO41_11820	COG1104	cysteine desulfurase activity
JO41_11825	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
JO41_11835	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
JO41_11880	COG2008	Catalyzes the cleavage of L-allo-threonine and L- threonine to glycine and acetaldehyde
JO41_11885	COG1321	iron dependent repressor
JO41_11890	COG0803	Belongs to the bacterial solute-binding protein 9 family
JO41_11895	COG1121	(ABC) transporter
JO41_11905	COG1108	ABC-type Mn2 Zn2 transport systems permease components
JO41_11915	COG1108	ABC-type Mn2 Zn2 transport systems permease components
JO41_11920	COG1683	Conserved Protein
JO41_11935	COG3869	Catalyzes the specific phosphorylation of arginine residues in
JO41_11945	COG3290	protein histidine kinase activity
JO41_11945	COG3829	transcription factor binding
JO41_11955	COG3852	Histidine kinase
JO41_11960	COG2204	response regulator
JO41_11965	COG0823	Involved in the tonB-independent uptake of proteins
JO41_12000	COG0427	acetyl-CoA hydrolase
JO41_12005	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
JO41_12010	COG0694	Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins
JO41_12040	COG1454	alcohol dehydrogenase
JO41_12055	COG0708	Exodeoxyribonuclease III
JO41_12065	COG2832	Protein of unknown function (DUF454)
JO41_12070	COG1137	ATPase activity
JO41_12080	COG2217	Heavy metal translocating P-type atpase
JO41_12100	COG0402	S-adenosylhomocysteine deaminase activity
JO41_12115	COG1120	ATPase activity
JO41_12140	COG0357	Ribosomal RNA small subunit methyltransferase G
JO41_12150	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
JO41_12155	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
JO41_12185	COG0457	Tetratricopeptide repeat
JO41_12195	COG0733	neurotransmitter:sodium symporter activity
JO41_12200	COG1233	COG1233 Phytoene dehydrogenase and related
JO41_12205	COG1562	ergosterol biosynthetic process
JO41_12210	COG0170	dolichyl monophosphate biosynthetic process
JO41_12215	COG1196	nuclear chromosome segregation
JO41_12225	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
JO41_12230	COG0724	RNA recognition motif
JO41_12240	COG0606	chelatase, subunit chli
JO41_12245	COG4953	penicillin-binding protein 1C
JO41_12250	COG1373	ATPase (AAA superfamily
JO41_12490	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
JO41_12495	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
JO41_12510	COG1136	(ABC) transporter
JO41_12515	COG4591	ABC-type transport system involved in lipoprotein release permease component
JO41_12525	COG0552	protein localization to endoplasmic reticulum
JO41_12535	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
JO41_12550	COG1122	ATPase activity
JO41_12555	COG1268	BioY protein
JO41_12565	COG0446	pyridine nucleotide-disulphide oxidoreductase
JO41_12570	COG1876	peptidase activity
JO41_12600	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
JO41_12605	COG0601	transmembrane transport
JO41_12610	COG4608	Belongs to the ABC transporter superfamily
JO41_12620	COG0561	phosphatase activity
JO41_12625	COG0436	Aminotransferase
JO41_12630	COG1522	sequence-specific DNA binding
JO41_12640	COG0101	tRNA pseudouridine synthase activity
JO41_12650	COG0736	holo-[acyl-carrier-protein] synthase activity
JO41_12660	COG1624	Catalyzes the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP), a second messenger used to regulate differing processes in different bacteria
JO41_12665	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