locus-tag	class	description
JO40_00025	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
JO40_00035	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
JO40_00040	COG0495	leucyl-tRNA aminoacylation
JO40_00050	COG0750	zinc metalloprotease
JO40_00055	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
JO40_00060	COG0575	Belongs to the CDS family
JO40_00065	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
JO40_00070	COG0233	cytoplasmic translational termination
JO40_00075	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
JO40_00080	COG0052	Belongs to the universal ribosomal protein uS2 family
JO40_00085	COG0424	maF-like protein
JO40_00090	COG1413	lyase activity
JO40_00110	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
JO40_00115	COG1699	Binds to the C-terminal region of flagellin, which is implicated in polymerization, and participates in the assembly of the flagellum
JO40_00120	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
JO40_00130	COG1196	nuclear chromosome segregation
JO40_00130	COG0741	lytic transglycosylase activity
JO40_00130	COG0739	heme binding
JO40_00155	COG0668	transmembrane transport
JO40_00175	COG0840	transmembrane signaling receptor activity
JO40_00195	COG4166	transmembrane transport
JO40_00200	COG0601	transmembrane transport
JO40_00205	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
JO40_00210	COG0444	Belongs to the ABC transporter superfamily
JO40_00215	COG4172	Belongs to the ABC transporter superfamily
JO40_00220	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
JO40_00225	COG0709	Synthesizes selenophosphate from selenide and ATP
JO40_00245	COG0425	Belongs to the sulfur carrier protein TusA family
JO40_00260	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
JO40_00275	COG0601	transmembrane transport
JO40_00280	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
JO40_00285	COG0444	Belongs to the ABC transporter superfamily
JO40_00290	COG4608	Belongs to the ABC transporter superfamily
JO40_00310	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
JO40_00310	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
JO40_00340	COG0534	Mate efflux family protein
JO40_00345	COG0840	transmembrane signaling receptor activity
JO40_00350	COG1757	Na H antiporter
JO40_00365	COG3290	protein histidine kinase activity
JO40_00365	COG3829	transcription factor binding
JO40_00390	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
JO40_00395	COG0049	tRNA binding
JO40_00400	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
JO40_00415	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
JO40_00415	COG1013	pyruvate-flavodoxin oxidoreductase activity
JO40_00415	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
JO40_00415	COG0674	pyruvate-flavodoxin oxidoreductase activity
JO40_00425	COG0626	cystathionine gamma-synthase activity
JO40_00435	COG1757	Na H antiporter
JO40_00470	COG1122	ATPase activity
JO40_00530	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
JO40_00555	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
JO40_00585	COG0598	Magnesium transport protein CorA
JO40_00590	COG0617	tRNA 3'-terminal CCA addition
JO40_00605	COG0071	Belongs to the small heat shock protein (HSP20) family
JO40_00615	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
JO40_00620	COG0333	Belongs to the bacterial ribosomal protein bL32 family
JO40_00630	COG2185	Catalyzes the reversible interconversion of isobutyryl- CoA and n-butyryl-CoA, using radical chemistry. Also exhibits GTPase activity, associated with its G-protein domain (MeaI) that functions as a chaperone that assists cofactor delivery and proper holo-enzyme assembly
JO40_00660	COG1570	exodeoxyribonuclease VII activity
JO40_00665	COG1067	ATP-dependent peptidase activity
JO40_00675	COG2703	oxygen carrier activity
JO40_00680	COG2183	response to ionizing radiation
JO40_00690	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
JO40_00695	COG1722	exodeoxyribonuclease VII activity
JO40_00700	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
JO40_00740	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
JO40_00745	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
JO40_00750	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
JO40_00755	COG0085	RNA polymerase activity
JO40_00765	COG0222	ribosome binding
JO40_00770	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
JO40_00775	COG0081	regulation of translation
JO40_00780	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
JO40_00785	COG0250	Participates in transcription elongation, termination and antitermination
JO40_00790	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
JO40_00800	COG0267	Belongs to the bacterial ribosomal protein bL33 family
JO40_00835	COG1652	LysM domain
JO40_00855	COG0326	Molecular chaperone. Has ATPase activity
JO40_00865	COG0210	DNA helicase
JO40_00870	COG1132	(ABC) transporter
JO40_00875	COG1132	(ABC) transporter
JO40_00880	COG2195	Cleaves the N-terminal amino acid of tripeptides
JO40_00900	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
JO40_00910	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
JO40_00915	COG0840	transmembrane signaling receptor activity
JO40_00935	COG3956	TIGRFAM MazG family protein
JO40_00960	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
JO40_00985	COG1132	(ABC) transporter
JO40_00990	COG1012	belongs to the aldehyde dehydrogenase family
JO40_00995	COG0357	Ribosomal RNA small subunit methyltransferase G
JO40_01030	COG4115	mRNA cleavage
JO40_01040	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
JO40_01060	COG1120	ATPase activity
JO40_01065	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
JO40_01070	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
JO40_01080	COG4865	methylaspartate mutase activity
JO40_01085	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
JO40_01095	COG0513	Belongs to the DEAD box helicase family
JO40_01100	COG0284	orotidine-5'-phosphate decarboxylase activity
JO40_01120	COG1131	(ABC) transporter
JO40_01125	COG2208	phosphoserine phosphatase activity
JO40_01125	COG2770	Histidine kinase
JO40_01155	COG1978	Selenoprotein B, glycine betaine sarcosine D-proline reductase family
JO40_01175	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
JO40_01190	COG1272	protein, Hemolysin III
JO40_01195	COG3177	Filamentation induced by cAMP protein fic
JO40_01200	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
JO40_01220	COG2378	regulation of single-species biofilm formation
JO40_01250	COG2885	chlorophyll binding
JO40_01255	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
JO40_01255	COG1014	Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin
JO40_01255	COG1013	pyruvate-flavodoxin oxidoreductase activity
JO40_01255	COG0674	pyruvate-flavodoxin oxidoreductase activity
JO40_01260	COG0737	Belongs to the 5'-nucleotidase family
JO40_01310	COG0148	phosphopyruvate hydratase activity
JO40_01315	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
JO40_01325	COG2738	Putative neutral zinc metallopeptidase
JO40_01340	COG2226	methyltransferase
JO40_01380	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
JO40_01385	COG0671	phosphoesterase, PA-phosphatase related
JO40_01410	COG1022	Amp-dependent synthetase and ligase
JO40_01430	COG0739	heme binding
JO40_01435	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
JO40_01435	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
JO40_01450	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
JO40_01455	COG0549	Belongs to the carbamate kinase family
JO40_01460	COG0534	Mate efflux family protein
JO40_01470	COG0828	Belongs to the bacterial ribosomal protein bS21 family
JO40_01485	COG1362	aminopeptidase activity
JO40_01490	COG0445	tRNA wobble uridine modification
JO40_01495	COG0210	DNA helicase
JO40_01515	COG3604	Transcriptional regulator
JO40_01565	COG1573	uracil-dna glycosylase
JO40_01570	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
JO40_01575	COG0196	riboflavin kinase activity
JO40_01580	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
JO40_01585	COG1185	polyribonucleotide nucleotidyltransferase activity
JO40_01590	COG0756	dUTP diphosphatase activity
JO40_01605	COG0564	pseudouridine synthase activity
JO40_01610	COG0156	8-amino-7-oxononanoate synthase activity
JO40_01640	COG1132	(ABC) transporter
JO40_01655	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
JO40_01660	COG1329	Transcriptional regulator
JO40_01665	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
JO40_01665	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
JO40_01670	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
JO40_01695	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
JO40_01700	COG0815	Transfers the fatty acyl group on membrane lipoproteins
JO40_01705	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
JO40_01735	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)
JO40_01750	COG1111	helicase
JO40_01750	COG1205	dead DEAH box helicase
JO40_01765	COG0504	CTP synthase activity
JO40_01780	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
JO40_01780	COG1747	RNA polymerase binding
JO40_01795	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
JO40_01840	COG0330	HflC and HflK could
JO40_01860	COG1129	ABC transporter
JO40_01885	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
JO40_01895	COG0227	Belongs to the bacterial ribosomal protein bL28 family
JO40_01905	COG4608	Belongs to the ABC transporter superfamily
JO40_01925	COG0601	transmembrane transport
JO40_01935	COG3315	Exhibits S-adenosyl-L-methionine-dependent methyltransferase activity
JO40_01940	COG4657	Part of a membrane complex involved in electron transport
JO40_01945	COG4660	Part of a membrane complex involved in electron transport
JO40_01955	COG4658	electron transport chain
JO40_01960	COG4656	Part of a membrane complex involved in electron transport
JO40_01970	COG2304	oxidoreductase activity
JO40_01985	COG0574	Belongs to the PEP-utilizing enzyme family
JO40_01985	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)
JO40_01995	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
JO40_02020	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
JO40_02025	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
JO40_02030	COG2137	regulation of response to DNA damage stimulus
JO40_02035	COG2197	response regulator
JO40_02060	COG1187	pseudouridine synthase activity
JO40_02065	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)
JO40_02115	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
JO40_02135	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
JO40_02145	COG2226	methyltransferase
JO40_02165	COG1254	Belongs to the acylphosphatase family
JO40_02190	COG0203	ribosomal protein L17
JO40_02195	COG0202	RNA polymerase activity
JO40_02200	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
JO40_02205	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
JO40_02215	COG0200	Binds to the 23S rRNA
JO40_02220	COG1841	ribosomal large subunit assembly
JO40_02225	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
JO40_02230	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
JO40_02235	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
JO40_02240	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
JO40_02245	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
JO40_02250	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
JO40_02255	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
JO40_02260	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
JO40_02265	COG0255	Belongs to the universal ribosomal protein uL29 family
JO40_02270	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
JO40_02275	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
JO40_02280	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
JO40_02285	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
JO40_02290	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
JO40_02295	COG0089	rRNA binding
JO40_02300	COG0088	Forms part of the polypeptide exit tunnel
JO40_02305	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
JO40_02310	COG0051	transcription antitermination factor activity, RNA binding
JO40_02315	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
JO40_02340	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)
JO40_02370	COG0840	transmembrane signaling receptor activity
JO40_02375	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
JO40_02380	COG0564	pseudouridine synthase activity
JO40_02390	COG0218	Necessary for normal cell division and for the maintenance of normal septation
JO40_02395	COG0166	Belongs to the GPI family
JO40_02400	COG1362	aminopeptidase activity
JO40_02405	COG0607	Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS
JO40_02410	COG0724	RNA recognition motif
JO40_02415	COG2211	Major facilitator Superfamily
JO40_02465	COG0396	ATPase activity
JO40_02470	COG0719	Fe-S assembly protein
JO40_02480	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
JO40_02500	COG2201	protein-glutamate methylesterase activity
JO40_02520	COG1137	ATPase activity
JO40_02525	COG0193	aminoacyl-tRNA hydrolase activity
JO40_02535	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
JO40_02545	COG0601	transmembrane transport
JO40_02550	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
JO40_02555	COG0444	Belongs to the ABC transporter superfamily
JO40_02560	COG4608	Belongs to the ABC transporter superfamily
JO40_02565	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
JO40_02570	COG1876	peptidase activity
JO40_02590	COG0484	heat shock protein binding
JO40_02595	COG0443	Heat shock 70 kDa protein
JO40_02600	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
JO40_02630	COG1120	ATPase activity
JO40_02660	COG0534	Mate efflux family protein
JO40_02680	COG2875	Belongs to the precorrin methyltransferase family
JO40_02685	COG1192	Involved in chromosome partitioning
JO40_02710	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
JO40_02715	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
JO40_02730	COG1028	Short-chain dehydrogenase reductase Sdr
JO40_02745	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
JO40_02775	COG0439	Biotin carboxylase
JO40_02780	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
JO40_02785	COG0825	malonyl-CoA metabolic process
JO40_02790	COG2986	histidine ammonia-lyase
JO40_02810	COG0714	Associated with various cellular activities
JO40_02850	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)
JO40_02855	COG0154	amidase activity
JO40_02860	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)
JO40_03010	COG1136	(ABC) transporter
JO40_03145	COG1396	sequence-specific DNA binding
JO40_03155	COG3550	peptidyl-serine autophosphorylation
JO40_03190	COG2249	NAD(P)H dehydrogenase (quinone) activity
JO40_03210	COG1132	(ABC) transporter
JO40_03280	COG1132	(ABC) transporter
JO40_03285	COG1132	(ABC) transporter
JO40_03290	COG0280	phosphate acetyltransferase
JO40_03295	COG0457	Tetratricopeptide repeat
JO40_03300	COG0587	DNA-directed DNA polymerase activity
JO40_03335	COG3177	Filamentation induced by cAMP protein fic
JO40_03345	COG4121	Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34
JO40_03345	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
JO40_03350	COG0446	pyridine nucleotide-disulphide oxidoreductase
JO40_03380	COG1136	(ABC) transporter
JO40_03390	COG0095	Lipoate-protein ligase
JO40_03400	COG1131	(ABC) transporter
JO40_03405	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
JO40_03455	COG0112	Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF- independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism
JO40_03465	COG0516	GMP reductase activity
JO40_03470	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
JO40_03475	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
JO40_03505	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
JO40_03550	COG1774	PSP1 C-terminal conserved region
JO40_03555	COG1728	Protein conserved in bacteria
JO40_03565	COG0739	heme binding
JO40_03570	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
JO40_03590	COG1609	Transcriptional regulator
JO40_03595	COG1129	ABC transporter
JO40_03625	COG0543	2 iron, 2 sulfur cluster binding
JO40_03635	COG0784	Response regulator, receiver
JO40_03635	COG3437	response regulator, receiver
JO40_03655	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)
JO40_03705	COG1222	aaa ATPase
JO40_03725	COG3177	Filamentation induced by cAMP protein fic
JO40_03740	COG1129	ABC transporter
JO40_03745	COG1132	(ABC) transporter
JO40_03785	COG1132	(ABC) transporter
JO40_03790	COG1309	transcriptional regulator
JO40_03800	COG3189	MarR family transcriptional regulator
JO40_03815	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
JO40_03825	COG1684	flagellar biosynthetic protein fliR
JO40_03830	COG1987	bacterial-type flagellum assembly
JO40_03860	COG1228	amidohydrolase
JO40_03900	COG2114	Pfam Adenylate and Guanylate cyclase catalytic domain
JO40_03905	COG0583	DNA-binding transcription factor activity
JO40_03915	COG0747	negative chemotaxis
JO40_03920	COG4608	Belongs to the ABC transporter superfamily
JO40_03925	COG0444	Belongs to the ABC transporter superfamily
JO40_03930	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
JO40_03955	COG1775	2-hydroxyglutaryl-CoA dehydratase, D-component
JO40_03970	COG1775	2-hydroxyglutaryl-CoA dehydratase, D-component
JO40_03985	COG1840	ABC-type Fe3 transport system, periplasmic component
JO40_03995	COG4143	(ABC) transporter
JO40_04015	COG1473	amidohydrolase
JO40_04020	COG4585	Histidine kinase
JO40_04025	COG2197	response regulator
JO40_04030	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
JO40_04115	COG3093	addiction module antidote protein HigA
JO40_04120	COG3549	Plasmid maintenance system killer
JO40_04130	COG0728	peptidoglycan biosynthetic process
JO40_04135	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
JO40_04140	COG3588	fructose-bisphosphate aldolase
JO40_04170	COG0012	GTP binding
JO40_04175	COG0616	signal peptide processing
JO40_04180	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
JO40_04200	COG5012	cobalamin binding
JO40_04205	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)
JO40_04210	COG1132	(ABC) transporter
JO40_04215	COG1132	(ABC) transporter
JO40_04225	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
JO40_04230	COG0363	glucosamine-6-phosphate deaminase activity
JO40_04240	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
JO40_04260	COG0786	glutamate:sodium symporter activity
JO40_04265	COG0840	transmembrane signaling receptor activity
JO40_04270	COG0840	transmembrane signaling receptor activity
JO40_04275	COG0813	purine-nucleoside phosphorylase activity
JO40_04325	COG5001	Diguanylate cyclase
JO40_04325	COG5002	protein histidine kinase activity
JO40_04330	COG0540	Belongs to the ATCase OTCase family
JO40_04330	COG1781	'de novo' pyrimidine nucleobase biosynthetic process
JO40_04365	COG3842	ATPase activity
JO40_04370	COG3833	ABC-type maltose transport systems, permease component
JO40_04375	COG1175	transmembrane transport
JO40_04385	COG1418	mRNA catabolic process
JO40_04395	COG0420	3'-5' exonuclease activity
JO40_04400	COG3290	protein histidine kinase activity
JO40_04400	COG0840	transmembrane signaling receptor activity
JO40_04410	COG1131	(ABC) transporter
JO40_04430	COG0716	FMN binding
JO40_04445	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
JO40_04450	COG2110	phosphatase homologous to the C-terminal domain of histone macroH2A1
JO40_04455	COG0592	DNA-directed DNA polymerase activity
JO40_04460	COG1195	it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP
JO40_04530	COG5512	Zn-ribbon-containing possibly RNA-binding protein and truncated derivatives
JO40_04590	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
JO40_04600	COG1055	Involved in arsenical resistance. Thought to form the channel of an arsenite pump
JO40_04610	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
JO40_04640	COG2184	nucleotidyltransferase activity
JO40_04650	COG0730	response to heat
JO40_04655	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
JO40_04670	COG4208	sulfate ABC transporter
JO40_04675	COG3839	Belongs to the ABC transporter superfamily
JO40_04695	COG2039	Removes 5-oxoproline from various penultimate amino acid residues except L-proline
JO40_04705	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
JO40_04725	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
JO40_04730	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
JO40_04740	COG0569	domain protein
JO40_04745	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
JO40_04765	COG0214	Catalyzes the formation of pyridoxal 5'-phosphate from ribose 5-phosphate (RBP), glyceraldehyde 3-phosphate (G3P) and ammonia. The ammonia is provided by the PdxT subunit. Can also use ribulose 5-phosphate and dihydroxyacetone phosphate as substrates, resulting from enzyme-catalyzed isomerization of RBP and G3P, respectively
JO40_04785	COG2235	arginine
JO40_04790	COG1385	rRNA (uridine-N3-)-methyltransferase activity
JO40_04805	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
JO40_04810	COG0569	domain protein
JO40_04820	COG1487	ribonuclease activity
JO40_04835	COG0714	Associated with various cellular activities
JO40_04840	COG4536	flavin adenine dinucleotide binding
JO40_04845	COG4536	flavin adenine dinucleotide binding
JO40_04860	COG0514	ATP-dependent DNA helicase (RecQ)
JO40_04870	COG1518	maintenance of DNA repeat elements
JO40_04875	COG3512	CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Functions as a ssRNA-specific endoribonuclease. Involved in the integration of spacer DNA into the CRISPR cassette
JO40_04890	COG1132	(ABC) transporter
JO40_04915	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
JO40_04935	COG2274	protein secretion by the type I secretion system
JO40_04935	COG3271	cysteine-type peptidase activity
JO40_04945	COG0438	transferase activity, transferring glycosyl groups
JO40_04950	COG3842	ATPase activity
JO40_04960	COG3706	GGDEF domain
JO40_04975	COG0812	UDP-N-acetylmuramate dehydrogenase activity
JO40_04980	COG0215	cysteine-tRNA ligase activity
JO40_04995	COG1305	Transglutaminase-like
JO40_05000	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
JO40_05005	COG0569	domain protein
JO40_05010	COG2887	Belongs to the helicase family. UvrD subfamily
JO40_05060	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
JO40_05115	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
JO40_05125	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
JO40_05135	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
JO40_05145	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
JO40_05155	COG4555	ABC transporter
JO40_05215	COG1151	hydroxylamine reductase activity
JO40_05235	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
JO40_05240	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
JO40_05260	COG1401	restriction endodeoxyribonuclease activity
JO40_05270	COG4946	Tricorn protease homolog
JO40_05270	COG1506	peptidase
JO40_05270	COG0823	Involved in the tonB-independent uptake of proteins
JO40_05285	COG1104	cysteine desulfurase activity
JO40_05290	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
JO40_05295	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
JO40_05320	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
JO40_05335	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)
JO40_05345	COG1929	Belongs to the glycerate kinase type-1 family
JO40_05350	COG2217	Heavy metal translocating P-type atpase
JO40_05360	COG0494	nUDIX hydrolase
JO40_05370	COG0783	Belongs to the Dps family
JO40_05375	COG0450	alkyl hydroperoxide reductase
JO40_05380	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
JO40_05395	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
JO40_05400	COG1363	Peptidase, m42
JO40_05415	COG0423	glycine-tRNA ligase activity
JO40_05435	COG1472	Belongs to the glycosyl hydrolase 3 family
JO40_05545	COG1129	ABC transporter
JO40_05560	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
JO40_05600	COG1011	Hydrolase
JO40_05655	COG0456	acetyltransferase
JO40_05695	COG1129	ABC transporter
JO40_05750	COG0745	RESPONSE REGULATOR receiver
JO40_05750	COG3706	GGDEF domain
JO40_05765	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
JO40_05800	COG1191	sigma factor activity
JO40_05810	COG0455	bacterial-type flagellum organization
JO40_05815	COG1419	protein localization to endoplasmic reticulum
JO40_05820	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
JO40_05855	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
JO40_05870	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
JO40_05875	COG1360	Flagellar Motor Protein
JO40_05880	COG1580	Controls the rotational direction of flagella during chemotaxis
JO40_05885	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
JO40_05890	COG1776	CheC inhibitor of MCP methylation
JO40_05890	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
JO40_05900	COG1338	Plays a role in the flagellum-specific transport system
JO40_05945	COG2423	ornithine cyclodeaminase activity
JO40_05950	COG0739	heme binding
JO40_05950	COG0741	lytic transglycosylase activity
JO40_05950	COG1196	nuclear chromosome segregation
JO40_05955	COG4545	Glutaredoxin-related protein
JO40_05970	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
JO40_05985	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
JO40_05985	COG3116	cell division
JO40_05990	COG0084	hydrolase, TatD family'
JO40_06000	COG2199	diguanylate cyclase activity
JO40_06000	COG2203	Gaf domain
JO40_06005	COG0745	RESPONSE REGULATOR receiver
JO40_06005	COG3706	GGDEF domain
JO40_06025	COG0187	DNA topoisomerase II activity
JO40_06030	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
JO40_06035	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
JO40_06080	COG0577	efflux transmembrane transporter activity
JO40_06080	COG1136	(ABC) transporter
JO40_06085	COG0378	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG
JO40_06140	COG1266	CAAX protease self-immunity
JO40_06150	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
JO40_06215	COG1012	belongs to the aldehyde dehydrogenase family
JO40_06225	COG1978	Selenoprotein B, glycine betaine sarcosine D-proline reductase family
JO40_06250	COG1113	amino acid transport
JO40_06255	COG0196	riboflavin kinase activity
JO40_06260	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)
JO40_06265	COG1160	GTP binding
JO40_06280	COG0840	transmembrane signaling receptor activity
JO40_06285	COG0826	peptidase U32
JO40_06295	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
JO40_06300	COG1509	lysine 2,3-aminomutase activity
JO40_06305	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
JO40_06310	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
JO40_06325	COG0205	6-phosphofructokinase activity
JO40_06355	COG0324	Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A)
JO40_06370	COG4783	chaperone-mediated protein folding
JO40_06375	COG2114	Pfam Adenylate and Guanylate cyclase catalytic domain
JO40_06485	COG1592	Rubrerythrin
JO40_06490	COG0514	ATP-dependent DNA helicase (RecQ)
JO40_06495	COG1381	Involved in DNA repair and RecF pathway recombination
JO40_06505	COG0343	queuine tRNA-ribosyltransferase activity
JO40_06560	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
JO40_06570	COG4555	ABC transporter
JO40_06585	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
JO40_06590	COG2239	Acts as a magnesium transporter
JO40_06600	COG0546	phosphoglycolate phosphatase activity
JO40_06610	COG3118	belongs to the thioredoxin family
JO40_06630	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
JO40_06645	COG1240	Involved in chlorophyll biosynthesis. Catalyzes the insertion of magnesium ion into protoporphyrin IX to yield Mg- protoporphyrin IX
JO40_06645	COG1239	Involved in chlorophyll biosynthesis. Catalyzes the insertion of magnesium ion into protoporphyrin IX to yield Mg- protoporphyrin IX
JO40_06650	COG1239	Involved in chlorophyll biosynthesis. Catalyzes the insertion of magnesium ion into protoporphyrin IX to yield Mg- protoporphyrin IX
JO40_06675	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
JO40_06685	COG1757	Na H antiporter
JO40_06690	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
JO40_06695	COG4443	Transcriptional Coactivator p15 (PC4)
JO40_06700	COG0328	RNA-DNA hybrid ribonuclease activity
JO40_06710	COG0301	tRNA thio-modification
JO40_06735	COG1108	ABC-type Mn2 Zn2 transport systems permease components
JO40_06740	COG1121	(ABC) transporter
JO40_06750	COG4988	ABC transporter
JO40_06755	COG1132	(ABC) transporter
JO40_06785	COG0335	large ribosomal subunit rRNA binding
JO40_06790	COG0336	Belongs to the RNA methyltransferase TrmD family
JO40_06795	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
JO40_06800	COG1837	Belongs to the UPF0109 family
JO40_06805	COG0228	four-way junction DNA binding
JO40_06825	COG1136	(ABC) transporter
JO40_06825	COG0577	efflux transmembrane transporter activity
JO40_06830	COG1136	(ABC) transporter
JO40_06845	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
JO40_06850	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
JO40_06900	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
JO40_06905	COG1285	pathogenesis
JO40_06925	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
JO40_06930	COG0534	Mate efflux family protein
JO40_06935	COG2114	Pfam Adenylate and Guanylate cyclase catalytic domain
JO40_06940	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
JO40_06945	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
JO40_06965	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
JO40_06970	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
JO40_06975	COG0116	Belongs to the methyltransferase superfamily
JO40_06980	COG3735	TraB family
JO40_06990	COG0791	NLP P60 protein
JO40_06995	COG0318	PFAM AMP-dependent synthetase and ligase
JO40_07005	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
JO40_07050	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
JO40_07060	COG0732	type I restriction modification DNA specificity domain
JO40_07065	COG4974	Belongs to the 'phage' integrase family
JO40_07070	COG0732	type I restriction modification DNA specificity domain
JO40_07085	COG1979	alcohol dehydrogenase
JO40_07140	COG0656	L-ascorbic acid biosynthetic process
JO40_07190	COG3620	sequence-specific DNA binding
JO40_07195	COG2189	Belongs to the N(4) N(6)-methyltransferase family
JO40_07200	COG3421	Type III restriction
JO40_07205	COG2249	NAD(P)H dehydrogenase (quinone) activity
JO40_07220	COG0698	ribose 5-phosphate isomerase
JO40_07225	COG0039	L-malate dehydrogenase activity
JO40_07230	COG0534	Mate efflux family protein
JO40_07235	COG3848	Pyruvate phosphate dikinase
JO40_07235	COG0574	Belongs to the PEP-utilizing enzyme family
JO40_07240	COG1309	transcriptional regulator
JO40_07255	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
JO40_07275	COG1477	protein flavinylation
JO40_07280	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
JO40_07285	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
JO40_07300	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
JO40_07320	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
JO40_07325	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
JO40_07330	COG1862	Preprotein translocase
JO40_07340	COG0629	single-stranded DNA binding
JO40_07350	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
JO40_07355	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
JO40_07365	COG4857	Catalyzes the phosphorylation of methylthioribose into methylthioribose-1-phosphate
JO40_07370	COG0482	sulfurtransferase activity
JO40_07380	COG0351	phosphomethylpyrimidine kinase
JO40_07390	COG1131	(ABC) transporter
JO40_07420	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
JO40_07435	COG0406	alpha-ribazole phosphatase activity
JO40_07440	COG0322	excinuclease ABC activity
JO40_07450	COG1921	L-seryl-tRNASec selenium transferase activity
JO40_07470	COG1136	(ABC) transporter
JO40_07470	COG0577	efflux transmembrane transporter activity
JO40_07495	COG1639	'signal transduction protein
JO40_07500	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
JO40_07510	COG0101	tRNA pseudouridine synthase activity
JO40_07530	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
JO40_07535	COG0840	transmembrane signaling receptor activity
JO40_07585	COG1132	(ABC) transporter
JO40_07600	COG3142	Participates in the control of copper homeostasis
JO40_07660	COG3876	Protein conserved in bacteria
JO40_07680	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
JO40_07685	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
JO40_07690	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
JO40_07695	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
JO40_07700	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
JO40_07705	COG0484	heat shock protein binding
JO40_07710	COG0528	UMP kinase activity
JO40_07715	COG0565	Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA
JO40_07730	COG0539	negative regulation of cytoplasmic translation
JO40_07735	COG2204	response regulator
JO40_07740	COG1729	Mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division
JO40_07760	COG0820	rRNA (adenine-C2-)-methyltransferase activity
JO40_07785	COG0251	oxidation-reduction process
JO40_07815	COG1131	(ABC) transporter
JO40_07835	COG4585	Histidine kinase
JO40_07840	COG0542	response to heat
JO40_07865	COG2949	membrane
JO40_07875	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
JO40_07890	COG1692	metallophosphoesterase
JO40_07900	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
JO40_07910	COG0484	heat shock protein binding
JO40_07920	COG5341	Protein conserved in bacteria
JO40_07925	COG1752	Esterase of the alpha-beta hydrolase superfamily
JO40_07930	COG0584	glycerophosphoryl diester phosphodiesterase
JO40_07935	COG1512	COG1512 Beta-propeller domains of methanol dehydrogenase type
JO40_07940	COG1704	LemA family
JO40_07945	COG0018	arginyl-trna synthetase
JO40_07950	COG1040	competence protein
JO40_07955	COG2003	Belongs to the UPF0758 family
JO40_07960	COG1686	Belongs to the peptidase S11 family
JO40_07975	COG2116	formate transmembrane transporter activity
JO40_07980	COG2084	Dehydrogenase
JO40_07985	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
JO40_08000	COG4786	Flagellar basal body rod
JO40_08010	COG3951	Flagellar rod assembly protein muramidase FlgJ
JO40_08015	COG1690	Belongs to the RtcB family
JO40_08090	COG1132	(ABC) transporter
JO40_08125	COG1132	(ABC) transporter
JO40_08130	COG1129	ABC transporter
JO40_08165	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
JO40_08180	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
JO40_08205	COG2604	Protein of unknown function DUF115
JO40_08235	COG2195	Cleaves the N-terminal amino acid of tripeptides
JO40_08245	COG0803	Belongs to the bacterial solute-binding protein 9 family
JO40_08265	COG0442	prolyl-tRNA aminoacylation
JO40_08280	COG1879	ABC-type sugar transport system periplasmic component
JO40_08305	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
JO40_08310	COG0666	response to abiotic stimulus
JO40_08315	COG2078	PFAM AMMECR1 domain protein
JO40_08315	COG3885	ferrous iron binding
JO40_08330	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
JO40_08335	COG0281	malic enzyme
JO40_08360	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
JO40_08365	COG0444	Belongs to the ABC transporter superfamily
JO40_08370	COG4608	Belongs to the ABC transporter superfamily
JO40_08375	COG0426	domain, Protein
JO40_08375	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
JO40_08385	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
JO40_08390	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
JO40_08405	COG0564	pseudouridine synthase activity
JO40_08420	COG1561	YicC-like family, N-terminal region
JO40_08425	COG1102	Psort location Cytoplasmic, score
JO40_08430	COG3706	GGDEF domain
JO40_08440	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)
JO40_08470	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
JO40_08495	COG0368	Joins adenosylcobinamide-GDP and alpha-ribazole to generate adenosylcobalamin (Ado-cobalamin). Also synthesizes adenosylcobalamin 5'-phosphate from adenosylcobinamide-GDP and alpha-ribazole 5'-phosphate
JO40_08505	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
JO40_08520	COG2241	protein methyltransferase activity
JO40_08525	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
JO40_08570	COG0410	ABC transporter
JO40_08585	COG2376	Dihydroxyacetone kinase
JO40_08590	COG2376	Dihydroxyacetone kinase
JO40_08600	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
JO40_08625	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
JO40_08630	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
JO40_08635	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
JO40_08645	COG0779	Required for maturation of 30S ribosomal subunits
JO40_08665	COG0563	adenylate kinase activity
JO40_08670	COG3033	Beta-eliminating lyase
JO40_08690	COG1366	Belongs to the anti-sigma-factor antagonist family
JO40_08730	COG0220	tRNA (guanine-N7-)-methyltransferase activity
JO40_08735	COG0082	Catalyzes the anti-1,4-elimination of the C-3 phosphate and the C-6 proR hydrogen from 5-enolpyruvylshikimate-3-phosphate (EPSP) to yield chorismate, which is the branch point compound that serves as the starting substrate for the three terminal pathways of aromatic amino acid biosynthesis. This reaction introduces a second double bond into the aromatic ring system
JO40_08755	COG0459	protein refolding
JO40_08775	COG2344	Modulates transcription in response to changes in cellular NADH NAD( ) redox state
JO40_08780	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)
JO40_08795	COG0736	holo-[acyl-carrier-protein] synthase activity
JO40_08800	COG3681	Belongs to the UPF0597 family
JO40_08805	COG4953	penicillin-binding protein 1C
JO40_08810	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
JO40_08815	COG0291	Belongs to the bacterial ribosomal protein bL35 family
JO40_08820	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
JO40_08830	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
JO40_08835	COG1671	Belongs to the UPF0178 family
JO40_08845	COG0741	lytic transglycosylase activity
JO40_08845	COG1388	LysM domain
JO40_08925	COG0058	SHG alpha-glucan phosphorylase activity
JO40_08935	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
JO40_08960	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
JO40_08995	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
JO40_09010	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
JO40_09015	COG4750	Nucleotidyl transferase
JO40_09020	COG1115	amino acid carrier protein
JO40_09040	COG1193	negative regulation of DNA recombination
JO40_09090	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
JO40_09100	COG1702	phosphate starvation-inducible protein PhoH
JO40_09115	COG0149	triose-phosphate isomerase activity
JO40_09120	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)
JO40_09140	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
JO40_09160	COG2885	chlorophyll binding
JO40_09170	COG1199	ATP-dependent helicase activity
JO40_09190	COG0823	Involved in the tonB-independent uptake of proteins
JO40_09205	COG4254	PFAM FecR protein
JO40_09245	COG1286	toxin biosynthetic process
JO40_09250	COG0470	DNA polymerase III
JO40_09260	COG2204	response regulator
JO40_09265	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
JO40_09280	COG0475	glutathione-regulated potassium exporter activity
JO40_09285	COG1283	sodium-dependent phosphate transmembrane transporter activity
JO40_09330	COG0456	acetyltransferase
JO40_09340	COG0535	radical SAM domain protein
JO40_09350	COG1733	regulation of RNA biosynthetic process
JO40_09365	COG1234	tRNA 3'-trailer cleavage
JO40_09370	COG2378	regulation of single-species biofilm formation
JO40_09385	COG4555	ABC transporter
JO40_09395	COG2207	Transcriptional regulator
JO40_09400	COG1132	(ABC) transporter
JO40_09425	COG1129	ABC transporter
JO40_09475	COG0556	nucleotide-excision repair
JO40_09480	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
JO40_09480	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
JO40_09485	COG0557	exoribonuclease II activity
JO40_09510	COG4115	mRNA cleavage
JO40_09515	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
JO40_09550	COG1390	Produces ATP from ADP in the presence of a proton gradient across the membrane
JO40_09555	COG0640	Transcriptional regulator
JO40_09560	COG2217	Heavy metal translocating P-type atpase
JO40_09570	COG0564	pseudouridine synthase activity
JO40_09585	COG4656	Part of a membrane complex involved in electron transport
JO40_09620	COG0455	bacterial-type flagellum organization
JO40_09635	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
JO40_09635	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
JO40_09650	COG0488	(ABC) transporter
JO40_09660	COG0047	phosphoribosylformylglycinamidine synthase activity
JO40_09670	COG1078	dGTPase activity
JO40_09720	COG4032	Thiamine pyrophosphate enzyme, N-terminal TPP binding domain
JO40_09720	COG0028	Belongs to the TPP enzyme family
JO40_09725	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
JO40_09765	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
JO40_09780	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
JO40_09785	COG1216	Glycosyl transferase, family 2
JO40_09795	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
JO40_09830	COG1215	transferase activity, transferring glycosyl groups
JO40_09835	COG1215	transferase activity, transferring glycosyl groups
JO40_09850	COG0463	Glycosyl transferase, family 2
JO40_09850	COG1216	Glycosyl transferase, family 2
JO40_09895	COG3306	glycosyltransferase involved in LPS biosynthesis
JO40_09920	COG0706	membrane insertase activity
JO40_09950	COG0706	membrane insertase activity
JO40_09960	COG0297	glycogen (starch) synthase activity
JO40_09965	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
JO40_09980	COG0124	histidyl-tRNA synthetase
JO40_09990	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
JO40_10005	COG0488	(ABC) transporter
JO40_10015	COG0793	Belongs to the peptidase S41A family
JO40_10075	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
JO40_10080	COG0632	four-way junction helicase activity
JO40_10155	COG1136	(ABC) transporter
JO40_10160	COG0577	efflux transmembrane transporter activity
JO40_10160	COG1136	(ABC) transporter
JO40_10195	COG2361	Protein of unknown function DUF86
JO40_10275	COG0561	phosphatase activity
JO40_10310	COG2361	Protein of unknown function DUF86
JO40_10330	COG2337	Toxic component of a toxin-antitoxin (TA) module
JO40_10350	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
JO40_10360	COG0481	GTPase activity
JO40_10400	COG1114	Component of the transport system for branched-chain amino acids
JO40_10415	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
JO40_10445	COG0261	This protein binds to 23S rRNA in the presence of protein L20
JO40_10455	COG0211	Belongs to the bacterial ribosomal protein bL27 family
JO40_10460	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
JO40_10465	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
JO40_10475	COG0799	negative regulation of ribosome biogenesis
JO40_10480	COG2059	Chromate
JO40_10490	COG0484	heat shock protein binding
JO40_10500	COG0708	Exodeoxyribonuclease III
JO40_10510	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
JO40_10520	COG0739	heme binding
JO40_10585	COG0617	tRNA 3'-terminal CCA addition
JO40_10615	COG1846	Transcriptional regulator
JO40_10620	COG0519	Catalyzes the synthesis of GMP from XMP
JO40_10635	COG0126	phosphoglycerate kinase activity
JO40_10640	COG0860	N-Acetylmuramoyl-L-alanine amidase
JO40_10660	COG0268	Binds directly to 16S ribosomal RNA
JO40_10680	COG1546	Belongs to the CinA family
JO40_10680	COG1058	Belongs to the CinA family
JO40_10710	COG0588	phosphoglycerate mutase activity
JO40_10740	COG1131	(ABC) transporter
JO40_10750	COG0457	Tetratricopeptide repeat
JO40_10760	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
JO40_10765	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
JO40_10770	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
JO40_10775	COG1394	ATPase activity, coupled to movement of substances
JO40_10780	COG1269	ATP hydrolysis coupled proton transport
JO40_10790	COG0360	Binds together with S18 to 16S ribosomal RNA
JO40_10795	COG0629	single-stranded DNA binding
JO40_10800	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
JO40_10805	COG0359	binds to the 23S rRNA
JO40_10815	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
JO40_10820	COG0740	serine-type endopeptidase activity
JO40_10825	COG0544	peptidyl-prolyl cis-trans isomerase activity
JO40_10845	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
JO40_10855	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
JO40_10870	COG2885	chlorophyll binding
JO40_10875	COG0305	Participates in initiation and elongation during chromosome replication
JO40_10885	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
JO40_10890	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
JO40_10895	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
JO40_10925	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
JO40_10930	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
JO40_10935	COG2033	superoxide reductase activity
JO40_10985	COG0497	DNA recombination
JO40_11005	COG0791	NLP P60 protein
JO40_11005	COG1388	LysM domain
JO40_11015	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
JO40_11020	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
JO40_11030	COG0312	modulator of DNA gyrase
JO40_11045	COG1692	metallophosphoesterase
JO40_11055	COG0142	geranyltranstransferase activity
JO40_11080	COG0727	PFAM Uncharacterised protein family (UPF0153)
JO40_11095	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
JO40_11115	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
JO40_11130	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)
JO40_11135	COG2721	sulfolactate sulfo-lyase activity
JO40_11145	COG1349	DNA-binding transcription factor activity
JO40_11150	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
JO40_11175	COG1047	Peptidyl-prolyl cis-trans
JO40_11190	COG0731	radical SAM domain protein
JO40_11205	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
JO40_11210	COG1979	alcohol dehydrogenase
JO40_11215	COG2255	four-way junction helicase activity
JO40_11225	COG1725	Transcriptional regulator
JO40_11230	COG0653	protein targeting
JO40_11235	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
JO40_11240	COG0138	bifunctional purine biosynthesis protein purh
JO40_11245	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
JO40_11250	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
JO40_11255	COG0205	6-phosphofructokinase activity
JO40_11265	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
JO40_11300	COG0297	glycogen (starch) synthase activity
JO40_11325	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)
JO40_11335	COG0835	chemotaxis
JO40_11345	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
JO40_11350	COG0488	(ABC) transporter
JO40_11360	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
JO40_11360	COG0493	'glutamate synthase
JO40_11365	COG1903	Catalyzes the methylation of C-1 in cobalt-precorrin-5B to form cobalt-precorrin-6A
JO40_11405	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
JO40_11425	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
JO40_11435	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
JO40_11445	COG0509	glycine decarboxylation via glycine cleavage system
JO40_11450	COG0404	The glycine cleavage system catalyzes the degradation of glycine
JO40_11460	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
JO40_11490	COG3052	prosthetic group binding
JO40_11500	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
JO40_11500	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
JO40_11500	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
JO40_11505	COG0237	dephospho-CoA kinase activity
JO40_11515	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)
JO40_11520	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
JO40_11535	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
JO40_11540	COG0242	peptide deformylase activity
JO40_11550	COG1122	ATPase activity
JO40_11555	COG1268	BioY protein
JO40_11665	COG3697	Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase
JO40_11670	COG3053	Acetylation of prosthetic group (2-(5''-phosphoribosyl)- 3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase
JO40_11680	COG1951	Catalyzes the reversible hydration of fumarate to (S)- malate
JO40_11705	COG1136	(ABC) transporter
JO40_11710	COG0577	efflux transmembrane transporter activity
JO40_11730	COG3470	protein probably involved in high-affinity Fe2 transport
JO40_11735	COG0672	)-iron permease
JO40_11750	COG1136	(ABC) transporter
JO40_11760	COG1760	l-serine dehydratase
JO40_11765	COG1760	l-serine dehydratase
JO40_11775	COG0254	rRNA binding
JO40_11780	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
JO40_11800	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)
JO40_11800	COG0574	Belongs to the PEP-utilizing enzyme family
JO40_11810	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
JO40_11830	COG1196	nuclear chromosome segregation
JO40_11845	COG2201	protein-glutamate methylesterase activity
JO40_11855	COG0835	chemotaxis
JO40_11860	COG0643	Histidine kinase
JO40_11860	COG2198	Histidine kinase
JO40_11875	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
JO40_11880	COG0217	transcriptional regulatory protein
JO40_11930	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
JO40_11935	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
JO40_11945	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
JO40_11945	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
JO40_11960	COG0802	atpase or kinase
JO40_11970	COG2770	Histidine kinase
JO40_11970	COG3437	response regulator, receiver
JO40_11975	COG0635	Involved in the biosynthesis of porphyrin-containing compound
JO40_12020	COG0330	HflC and HflK could
JO40_12030	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
JO40_12060	COG1739	Uncharacterized protein family UPF0029
JO40_12090	COG0768	penicillin binding
JO40_12100	COG0433	COG0433 Predicted ATPase
JO40_12165	COG2190	(PTS) system
JO40_12165	COG2211	Major facilitator Superfamily
JO40_12185	COG1162	GTPase activity
JO40_12190	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
JO40_12195	COG0324	Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A)
JO40_12210	COG4166	transmembrane transport
JO40_12230	COG0525	valine-tRNA ligase activity
JO40_12235	COG2252	PERMEase
JO40_12260	COG0772	Belongs to the SEDS family
JO40_12265	COG0768	penicillin binding
JO40_12280	COG1077	Cell shape determining protein MreB Mrl
JO40_12295	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
JO40_12300	COG0358	DNA primase activity
JO40_12305	COG0606	chelatase, subunit chli
JO40_12320	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
JO40_12325	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
JO40_12335	COG1164	Oligoendopeptidase f
JO40_12345	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
JO40_12390	COG1132	(ABC) transporter
JO40_12775	COG0084	hydrolase, TatD family'
JO40_12785	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
JO40_12795	COG0438	transferase activity, transferring glycosyl groups
JO40_12810	COG3869	Catalyzes the specific phosphorylation of arginine residues in
JO40_12815	COG3880	PFAM UvrB UvrC protein
JO40_12825	COG1136	(ABC) transporter
JO40_12830	COG4591	ABC-type transport system involved in lipoprotein release permease component
JO40_12840	COG0552	protein localization to endoplasmic reticulum
JO40_12855	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
JO40_12895	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
JO40_12900	COG4475	Protein of unknown function (DUF436)
JO40_12935	COG0444	Belongs to the ABC transporter superfamily
JO40_12940	COG4608	Belongs to the ABC transporter superfamily
JO40_12965	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
JO40_12975	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
JO40_12980	COG3118	belongs to the thioredoxin family
JO40_12985	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
JO40_12990	COG0457	Tetratricopeptide repeat
JO40_13000	COG0037	tRNA processing
JO40_13005	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
JO40_13015	COG2088	sporulation resulting in formation of a cellular spore
JO40_13020	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
JO40_13025	COG0072	phenylalanine-tRNA ligase activity
JO40_13125	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
JO40_13170	COG1744	ABC transporter substrate-binding protein PnrA-like
JO40_13175	COG1363	Peptidase, m42
JO40_13180	COG1181	Belongs to the D-alanine--D-alanine ligase family
JO40_13195	COG0740	serine-type endopeptidase activity
JO40_13210	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
JO40_13220	COG1847	R3H domain protein
JO40_13225	COG0706	membrane insertase activity
JO40_13230	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
JO40_13235	COG0594	ribonuclease P activity
JO40_13240	COG0230	Belongs to the bacterial ribosomal protein bL34 family
JO40_13250	COG0803	Belongs to the bacterial solute-binding protein 9 family
JO40_13255	COG1121	(ABC) transporter
JO40_13260	COG1108	ABC-type Mn2 Zn2 transport systems permease components
JO40_13275	COG1472	Belongs to the glycosyl hydrolase 3 family
JO40_13290	COG1157	protein secretion by the type III secretion system
JO40_13295	COG1317	bacterial-type flagellum organization
JO40_13305	COG1766	The M ring may be actively involved in energy transduction
JO40_13310	COG1677	Flagellar hook-basal body complex protein FliE
JO40_13325	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
JO40_13330	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
JO40_13335	COG4974	Belongs to the 'phage' integrase family
JO40_13340	COG0551	DNA topoisomerase type I activity
JO40_13340	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
JO40_13345	COG0758	DNA mediated transformation
JO40_13360	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
JO40_13375	COG0772	Belongs to the SEDS family
JO40_13395	COG0275	rRNA processing
JO40_13400	COG2001	Belongs to the MraZ family
JO40_13405	COG1505	serine-type exopeptidase activity