locus-tag	class	description
PJH08_00040	COG1192	Involved in chromosome partitioning
PJH08_00070	COG4804	nuclease activity
PJH08_00090	COG0732	type I restriction modification DNA specificity domain
PJH08_00095	COG0732	type I restriction modification DNA specificity domain
PJH08_00110	COG1826	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes
PJH08_00115	COG0393	Putative heavy-metal-binding
PJH08_00135	COG0445	tRNA wobble uridine modification
PJH08_00140	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
PJH08_00150	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)
PJH08_00165	COG0420	3'-5' exonuclease activity
PJH08_00170	COG0419	ATPase involved in DNA repair
PJH08_00195	COG1197	Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site
PJH08_00200	COG0697	spore germination
PJH08_00210	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
PJH08_00210	COG0758	DNA mediated transformation
PJH08_00225	COG0189	ligase activity
PJH08_00225	COG4067	protein conserved in archaea
PJH08_00230	COG0746	molybdenum cofactor guanylyltransferase activity
PJH08_00235	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
PJH08_00240	COG0315	cyclic pyranopterin monophosphate synthase activity
PJH08_00245	COG0303	'Molybdopterin
PJH08_00250	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
PJH08_00270	COG0322	excinuclease ABC activity
PJH08_00275	COG1752	Esterase of the alpha-beta hydrolase superfamily
PJH08_00285	COG1530	ribonuclease E activity
PJH08_00290	COG0776	regulation of translation
PJH08_00310	COG1629	transport
PJH08_00310	COG4206	TonB-dependent receptor
PJH08_00320	COG0629	single-stranded DNA binding
PJH08_00360	COG0612	Peptidase, M16
PJH08_00365	COG0612	Peptidase, M16
PJH08_00370	COG0261	This protein binds to 23S rRNA in the presence of protein L20
PJH08_00375	COG0211	Belongs to the bacterial ribosomal protein bL27 family
PJH08_00380	COG3279	Response regulator of the LytR AlgR family
PJH08_00385	COG2972	Histidine kinase
PJH08_00385	COG0745	RESPONSE REGULATOR receiver
PJH08_00390	COG1054	Belongs to the UPF0176 family
PJH08_00395	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
PJH08_00400	COG1418	mRNA catabolic process
PJH08_00405	COG1024	Enoyl-CoA hydratase
PJH08_00410	COG5000	phosphorelay sensor kinase activity
PJH08_00415	COG0470	DNA polymerase III
PJH08_00435	COG1114	Component of the transport system for branched-chain amino acids
PJH08_00445	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
PJH08_00460	COG0220	tRNA (guanine-N7-)-methyltransferase activity
PJH08_00475	COG0489	protein tyrosine kinase activity
PJH08_00485	COG0492	ferredoxin-NADP+ reductase activity
PJH08_00495	COG0633	Ferredoxin
PJH08_00500	COG2116	formate transmembrane transporter activity
PJH08_00505	COG0716	FMN binding
PJH08_00535	COG1607	acyl-coa hydrolase
PJH08_00540	COG0628	permease
PJH08_00560	COG1210	Utp--glucose-1-phosphate uridylyltransferase
PJH08_00580	COG0488	(ABC) transporter
PJH08_00590	COG0745	RESPONSE REGULATOR receiver
PJH08_00595	COG5002	protein histidine kinase activity
PJH08_00610	COG0793	Belongs to the peptidase S41A family
PJH08_00620	COG0594	ribonuclease P activity
PJH08_00640	COG0810	Interacts with outer membrane receptor proteins that carry out high-affinity binding and energy dependent uptake into the periplasmic space of specific substrates. It could act to transduce energy from the cytoplasmic membrane to specific energy- requiring processes in the outer membrane, resulting in the release into the periplasm of ligands bound by these outer membrane proteins
PJH08_00655	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)
PJH08_00660	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
PJH08_00665	COG0193	aminoacyl-tRNA hydrolase activity
PJH08_00680	COG0720	synthase
PJH08_00690	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
PJH08_00695	COG0534	Mate efflux family protein
PJH08_00700	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
PJH08_00715	COG4585	Histidine kinase
PJH08_00725	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
PJH08_00745	COG3508	Involved in the catabolism of homogentisate (2,5- dihydroxyphenylacetate or 2,5-OH-PhAc), a central intermediate in the degradation of phenylalanine and tyrosine. Catalyzes the oxidative ring cleavage of the aromatic ring of homogentisate to yield maleylacetoacetate
PJH08_00750	COG3185	4-Hydroxyphenylpyruvate dioxygenase
PJH08_00755	COG3483	tryptophan 2,3-dioxygenase activity
PJH08_00765	COG0739	heme binding
PJH08_00770	COG0166	Belongs to the GPI family
PJH08_00775	COG4771	TonB-dependent receptor
PJH08_00810	COG0314	molybdopterin synthase activity
PJH08_00815	COG0126	phosphoglycerate kinase activity
PJH08_00820	COG0667	Aldo Keto reductase
PJH08_00855	COG1272	protein, Hemolysin III
PJH08_00860	COG2954	triphosphatase activity
PJH08_00920	COG0840	transmembrane signaling receptor activity
PJH08_00925	COG0840	transmembrane signaling receptor activity
PJH08_00935	COG0632	four-way junction helicase activity
PJH08_00945	COG0509	glycine decarboxylation via glycine cleavage system
PJH08_00965	COG0463	Glycosyl transferase, family 2
PJH08_00970	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
PJH08_00995	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)
PJH08_01010	COG1262	PFAM Formylglycine-generating sulfatase enzyme
PJH08_01010	COG0515	serine threonine protein kinase
PJH08_01020	COG1858	cytochrome C peroxidase
PJH08_01030	COG4771	TonB-dependent receptor
PJH08_01050	COG0495	leucyl-tRNA aminoacylation
PJH08_01070	COG1946	Acyl-CoA thioesterase
PJH08_01080	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
PJH08_01080	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
PJH08_01090	COG1970	mechanosensitive ion channel activity
PJH08_01095	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
PJH08_01100	COG1435	thymidine kinase activity
PJH08_01120	COG0779	Required for maturation of 30S ribosomal subunits
PJH08_01125	COG0195	Participates in both transcription termination and antitermination
PJH08_01130	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
PJH08_01240	COG4771	TonB-dependent receptor
PJH08_01250	COG0803	Belongs to the bacterial solute-binding protein 9 family
PJH08_01255	COG1121	(ABC) transporter
PJH08_01260	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PJH08_01265	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PJH08_01270	COG1074	ATP-dependent DNA helicase activity
PJH08_01275	COG0156	8-amino-7-oxononanoate synthase activity
PJH08_01285	COG0055	Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits
PJH08_01295	COG1826	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes
PJH08_01300	COG4122	O-methyltransferase activity
PJH08_01305	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
PJH08_01310	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
PJH08_01320	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
PJH08_01335	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
PJH08_01340	COG0132	Catalyzes a mechanistically unusual reaction, the ATP- dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring
PJH08_01345	COG0156	8-amino-7-oxononanoate synthase activity
PJH08_01365	COG0508	dehydrogenase complex catalyzes the overall conversion of
PJH08_01370	COG1012	belongs to the aldehyde dehydrogenase family
PJH08_01375	COG0564	pseudouridine synthase activity
PJH08_01380	COG0218	Necessary for normal cell division and for the maintenance of normal septation
PJH08_01385	COG2267	carboxylic ester hydrolase activity
PJH08_01390	COG2001	Belongs to the MraZ family
PJH08_01395	COG0275	rRNA processing
PJH08_01410	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
PJH08_01415	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
PJH08_01420	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
PJH08_01425	COG0772	Belongs to the SEDS family
PJH08_01435	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
PJH08_01450	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
PJH08_01455	COG1610	YqeY-like protein
PJH08_01470	COG0517	IMP dehydrogenase activity
PJH08_01475	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
PJH08_01480	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
PJH08_01485	COG1595	DNA-templated transcription, initiation
PJH08_01490	COG1595	DNA-templated transcription, initiation
PJH08_01510	COG2226	methyltransferase
PJH08_01515	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
PJH08_01530	COG0442	prolyl-tRNA aminoacylation
PJH08_01545	COG0268	Binds directly to 16S ribosomal RNA
PJH08_01560	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
PJH08_01565	COG1968	undecaprenyl-diphosphatase activity
PJH08_01575	COG2177	Part of the ABC transporter FtsEX involved in
PJH08_01580	COG0346	lactoylglutathione lyase activity
PJH08_01585	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
PJH08_01590	COG4591	ABC-type transport system involved in lipoprotein release permease component
PJH08_01605	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
PJH08_01625	COG0431	NADPH-dependent FMN reductase
PJH08_01635	COG0481	GTPase activity
PJH08_01650	COG4771	TonB-dependent receptor
PJH08_01665	COG0252	asparaginase activity
PJH08_01670	COG0811	peptide transport
PJH08_01680	COG0848	biopolymer transport protein
PJH08_01700	COG1508	bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding
PJH08_01705	COG0017	Asparaginyl-tRNA synthetase
PJH08_01720	COG0233	cytoplasmic translational termination
PJH08_01725	COG0528	UMP kinase activity
PJH08_01730	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
PJH08_01735	COG0052	Belongs to the universal ribosomal protein uS2 family
PJH08_01740	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
PJH08_01745	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
PJH08_01755	COG1477	protein flavinylation
PJH08_01760	COG2226	methyltransferase
PJH08_01775	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
PJH08_01780	COG0501	Belongs to the peptidase M48B family
PJH08_01785	COG3186	Phenylalanine-4-hydroxylase
PJH08_01805	COG1233	COG1233 Phytoene dehydrogenase and related
PJH08_01835	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
PJH08_01845	COG0702	epimerase
PJH08_01865	COG0386	Belongs to the glutathione peroxidase family
PJH08_01875	COG0415	Belongs to the DNA photolyase family
PJH08_01880	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
PJH08_01895	COG1629	transport
PJH08_01895	COG4206	TonB-dependent receptor
PJH08_01930	COG3540	Alkaline phosphatase
PJH08_01940	COG2363	Small membrane protein
PJH08_01950	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
PJH08_01960	COG0229	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
PJH08_01975	COG1160	GTP binding
PJH08_01985	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
PJH08_02020	COG2423	ornithine cyclodeaminase activity
PJH08_02035	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PJH08_02045	COG0006	proline dipeptidase activity
PJH08_02050	COG0006	proline dipeptidase activity
PJH08_02055	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
PJH08_02065	COG3938	Belongs to the proline racemase family
PJH08_02075	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
PJH08_02085	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
PJH08_02105	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
PJH08_02115	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
PJH08_02125	COG0854	Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate
PJH08_02130	COG0596	Alpha beta hydrolase
PJH08_02135	COG1950	PFAM Membrane protein of
PJH08_02140	COG0544	peptidyl-prolyl cis-trans isomerase activity
PJH08_02150	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
PJH08_02160	COG0358	DNA primase activity
PJH08_02165	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
PJH08_02180	COG0784	Response regulator, receiver
PJH08_02180	COG0835	chemotaxis
PJH08_02185	COG2197	response regulator
PJH08_02190	COG1428	Deoxynucleoside kinase
PJH08_02200	COG1185	polyribonucleotide nucleotidyltransferase activity
PJH08_02205	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
PJH08_02210	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
PJH08_02215	COG0191	fructose-bisphosphate aldolase activity
PJH08_02225	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
PJH08_02230	COG1428	Deoxynucleoside kinase
PJH08_02240	COG0321	lipoyl(octanoyl) transferase activity
PJH08_02250	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
PJH08_02265	COG1490	D-aminoacyl-tRNA deacylase activity
PJH08_02270	COG1162	GTPase activity
PJH08_02275	COG2876	3-deoxy-7-phosphoheptulonate synthase activity
PJH08_02280	COG0287	Prephenate dehydrogenase
PJH08_02280	COG1605	Chorismate mutase
PJH08_02350	COG0280	phosphate acetyltransferase
PJH08_02350	COG0857	belongs to the CobB CobQ family
PJH08_02355	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
PJH08_02360	COG0101	tRNA pseudouridine synthase activity
PJH08_02370	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
PJH08_02380	COG3067	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
PJH08_02385	COG0811	peptide transport
PJH08_02400	COG0285	dihydrofolate synthase activity
PJH08_02445	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
PJH08_02450	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
PJH08_02495	COG0110	maltose O-acetyltransferase activity
PJH08_02500	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
PJH08_02505	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
PJH08_02510	COG1209	Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis
PJH08_02530	COG0519	Catalyzes the synthesis of GMP from XMP
PJH08_02530	COG0518	GMP synthase (glutamine-hydrolyzing) activity
PJH08_02535	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
PJH08_02540	COG0295	cytidine deaminase activity
PJH08_02555	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
PJH08_02570	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
PJH08_02570	COG1333	cytochrome c biogenesis protein
PJH08_02575	COG0688	phosphatidylethanolamine metabolic process
PJH08_02580	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
PJH08_02580	COG1884	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
PJH08_02585	COG1884	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
PJH08_02620	COG2207	Transcriptional regulator
PJH08_02620	COG1917	Cupin 2, conserved barrel domain protein
PJH08_02625	COG4716	Myosin-crossreactive antigen
PJH08_02635	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
PJH08_02650	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
PJH08_02655	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
PJH08_02665	COG1132	(ABC) transporter
PJH08_02670	COG0101	tRNA pseudouridine synthase activity
PJH08_02680	COG4585	Histidine kinase
PJH08_02705	COG2197	response regulator
PJH08_02720	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
PJH08_02730	COG2315	Protein conserved in bacteria
PJH08_02740	COG0492	ferredoxin-NADP+ reductase activity
PJH08_02750	COG2866	Carboxypeptidase
PJH08_02760	COG3579	cysteine-type endopeptidase activity
PJH08_02795	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
PJH08_02800	COG0105	UTP biosynthetic process
PJH08_02810	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
PJH08_02825	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
PJH08_02830	COG0671	phosphoesterase, PA-phosphatase related
PJH08_02855	COG2120	A mycothiol (MSH, N-acetylcysteinyl-glucosaminyl- inositol) S-conjugate amidase, it recycles conjugated MSH to the N-acetyl cysteine conjugate (AcCys S-conjugate, a mercapturic acid) and the MSH precursor. Involved in MSH-dependent detoxification of a number of alkylating agents and antibiotics
PJH08_02940	COG1678	Uncharacterized ACR, COG1678
PJH08_02945	COG3279	Response regulator of the LytR AlgR family
PJH08_02950	COG3275	phosphorelay sensor kinase activity
PJH08_02960	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
PJH08_02980	COG4771	TonB-dependent receptor
PJH08_02990	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
PJH08_02995	COG1595	DNA-templated transcription, initiation
PJH08_03000	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
PJH08_03005	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
PJH08_03020	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
PJH08_03035	COG4365	Involved in bacillithiol (BSH) biosynthesis. May catalyze the last step of the pathway, the addition of cysteine to glucosamine malate (GlcN-Mal) to generate BSH
PJH08_03040	COG3129	Specifically methylates the adenine in position 1618 of 23S rRNA
PJH08_03050	COG0681	Belongs to the peptidase S26 family
PJH08_03055	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
PJH08_03065	COG0592	DNA-directed DNA polymerase activity
PJH08_03095	COG1104	cysteine desulfurase activity
PJH08_03110	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
PJH08_03115	COG1663	tetraacyldisaccharide 4'-kinase activity
PJH08_03120	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PJH08_03125	COG1136	(ABC) transporter
PJH08_03135	COG0045	succinate-CoA ligase (ADP-forming) activity
PJH08_03160	COG0556	nucleotide-excision repair
PJH08_03175	COG1278	Cold shock
PJH08_03180	COG1278	Cold shock
PJH08_03185	COG1278	Cold shock
PJH08_03190	COG4895	conserved protein (DUF2196)
PJH08_03210	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
PJH08_03220	COG2329	Antibiotic biosynthesis monooxygenase
PJH08_03225	COG4166	transmembrane transport
PJH08_03245	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
PJH08_03255	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
PJH08_03270	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
PJH08_03285	COG0300	oxidoreductase activity
PJH08_03290	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
PJH08_03295	COG1165	Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate (SEPHCHC)
PJH08_03300	COG2996	Protein conserved in bacteria
PJH08_03320	COG1058	Belongs to the CinA family
PJH08_03320	COG1546	Belongs to the CinA family
PJH08_03325	COG0227	Belongs to the bacterial ribosomal protein bL28 family
PJH08_03330	COG0267	Belongs to the bacterial ribosomal protein bL33 family
PJH08_03340	COG0552	protein localization to endoplasmic reticulum
PJH08_03355	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
PJH08_03385	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
PJH08_03410	COG1702	phosphate starvation-inducible protein PhoH
PJH08_03420	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
PJH08_03430	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
PJH08_03440	COG0156	8-amino-7-oxononanoate synthase activity
PJH08_03495	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
PJH08_03505	COG4108	Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP
PJH08_03510	COG1443	Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)
PJH08_03520	COG1482	cell wall glycoprotein biosynthetic process
PJH08_03530	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
PJH08_03580	COG3022	response to hydroperoxide
PJH08_03585	COG2949	membrane
PJH08_03590	COG1760	l-serine dehydratase
PJH08_03610	COG0205	6-phosphofructokinase activity
PJH08_03620	COG0251	oxidation-reduction process
PJH08_03625	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
PJH08_03630	COG0860	N-Acetylmuramoyl-L-alanine amidase
PJH08_03640	COG0247	lactate metabolic process
PJH08_03640	COG2181	nitrate reductase activity
PJH08_03645	COG2181	nitrate reductase activity
PJH08_03645	COG0247	lactate metabolic process
PJH08_03655	COG1575	Belongs to the MenA family. Type 1 subfamily
PJH08_03660	COG2220	Zn-dependent hydrolases of the beta-lactamase fold
PJH08_03670	COG4948	Mandelate Racemase Muconate Lactonizing
PJH08_03675	COG1266	CAAX protease self-immunity
PJH08_03690	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
PJH08_03695	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
PJH08_03700	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
PJH08_03705	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
PJH08_03710	COG1841	ribosomal large subunit assembly
PJH08_03715	COG0200	Binds to the 23S rRNA
PJH08_03720	COG0201	protein transport
PJH08_03725	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
PJH08_03730	COG0257	Belongs to the bacterial ribosomal protein bL36 family
PJH08_03735	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
PJH08_03740	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
PJH08_03745	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
PJH08_03750	COG0202	RNA polymerase activity
PJH08_03755	COG0203	ribosomal protein L17
PJH08_03760	COG0505	Belongs to the CarA family
PJH08_03765	COG0148	phosphopyruvate hydratase activity
PJH08_03775	COG0010	Belongs to the arginase family
PJH08_03780	COG2104	thiamine diphosphate biosynthetic process
PJH08_03785	COG0422	Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction
PJH08_03800	COG0352	thiamine-phosphate diphosphorylase activity
PJH08_03805	COG2022	thiamine diphosphate biosynthetic process
PJH08_03810	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
PJH08_03835	COG0300	oxidoreductase activity
PJH08_03850	COG2234	aminopeptidase activity
PJH08_03855	COG1120	ATPase activity
PJH08_03860	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
PJH08_03865	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
PJH08_03875	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
PJH08_03890	COG1295	ribonuclease BN
PJH08_03895	COG0124	histidyl-tRNA synthetase
PJH08_03900	COG0302	gtp cyclohydrolase
PJH08_03905	COG4771	TonB-dependent receptor
PJH08_03945	COG1862	Preprotein translocase
PJH08_03955	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
PJH08_03965	COG1132	(ABC) transporter
PJH08_03975	COG1169	isochorismate synthase
PJH08_03980	COG2050	protein possibly involved in aromatic compounds catabolism
PJH08_03990	COG0009	L-threonylcarbamoyladenylate synthase
PJH08_04010	COG0488	(ABC) transporter
PJH08_04015	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
PJH08_04040	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)
PJH08_04075	COG1418	mRNA catabolic process
PJH08_04080	COG2103	Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate
PJH08_04120	COG0335	large ribosomal subunit rRNA binding
PJH08_04125	COG0336	Belongs to the RNA methyltransferase TrmD family
PJH08_04130	COG0564	pseudouridine synthase activity
PJH08_04135	COG3124	Converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine prosthetic group from ACP
PJH08_04140	COG2195	Cleaves the N-terminal amino acid of tripeptides
PJH08_04145	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
PJH08_04155	COG1981	membrane
PJH08_04165	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
PJH08_04180	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
PJH08_04190	COG0113	porphobilinogen synthase activity
PJH08_04195	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
PJH08_04200	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
PJH08_04215	COG0408	coproporphyrinogen oxidase activity
PJH08_04220	COG0508	dehydrogenase complex catalyzes the overall conversion of
PJH08_04225	COG1090	epimerase
PJH08_04240	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PJH08_04240	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PJH08_04250	COG0215	cysteine-tRNA ligase activity
PJH08_04255	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
PJH08_04260	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
PJH08_04280	COG0590	tRNA wobble adenosine to inosine editing
PJH08_04305	COG0706	membrane insertase activity
PJH08_04310	COG0504	CTP synthase activity
PJH08_04315	COG0230	Belongs to the bacterial ribosomal protein bL34 family
PJH08_04320	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
PJH08_04325	COG1607	acyl-coa hydrolase
PJH08_04355	COG4628	conserved protein (DUF2132)
PJH08_04380	COG1408	metallophosphoesterase
PJH08_04420	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
PJH08_04430	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
PJH08_04435	COG2038	nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity
PJH08_04440	COG2087	Catalyzes ATP-dependent phosphorylation of adenosylcobinamide and addition of GMP to adenosylcobinamide phosphate
PJH08_04445	COG4206	TonB-dependent receptor
PJH08_04455	COG3011	Protein conserved in bacteria
PJH08_04460	COG1136	(ABC) transporter
PJH08_04465	COG1136	(ABC) transporter
PJH08_04465	COG0577	efflux transmembrane transporter activity
PJH08_04480	COG0404	The glycine cleavage system catalyzes the degradation of glycine
PJH08_04485	COG4628	conserved protein (DUF2132)
PJH08_04490	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
PJH08_04495	COG1028	Short-chain dehydrogenase reductase Sdr
PJH08_04500	COG3956	TIGRFAM MazG family protein
PJH08_04510	COG0242	peptide deformylase activity
PJH08_04515	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
PJH08_04520	COG2171	N-acyltransferase activity
PJH08_04525	COG0438	transferase activity, transferring glycosyl groups
PJH08_04530	COG1215	transferase activity, transferring glycosyl groups
PJH08_04550	COG0517	IMP dehydrogenase activity
PJH08_04550	COG0617	tRNA 3'-terminal CCA addition
PJH08_04550	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
PJH08_04555	COG1132	(ABC) transporter
PJH08_04560	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
PJH08_04565	COG0463	Glycosyl transferase, family 2
PJH08_04580	COG4974	Belongs to the 'phage' integrase family
PJH08_04590	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
PJH08_04605	COG1183	phosphatidylcholine synthase activity
PJH08_04610	COG1137	ATPase activity
PJH08_04620	COG0805	protein transport
PJH08_04630	COG0514	ATP-dependent DNA helicase (RecQ)
PJH08_04645	COG0686	Belongs to the AlaDH PNT family
PJH08_04655	COG2204	response regulator
PJH08_04660	COG1078	dGTPase activity
PJH08_04665	COG1044	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
PJH08_04670	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
PJH08_04670	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
PJH08_04680	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
PJH08_04690	COG0074	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit
PJH08_04710	COG2096	Adenosyltransferase
PJH08_04715	COG1797	cobyrinic acid a,c-diamide synthase activity
PJH08_04720	COG1239	Involved in chlorophyll biosynthesis. Catalyzes the insertion of magnesium ion into protoporphyrin IX to yield Mg- protoporphyrin IX
PJH08_04730	COG1903	Catalyzes the methylation of C-1 in cobalt-precorrin-5B to form cobalt-precorrin-6A
PJH08_04750	COG0778	Nitroreductase
PJH08_04770	COG1648	precorrin-2 dehydrogenase activity
PJH08_04770	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PJH08_04795	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
PJH08_04800	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
PJH08_04805	COG1492	cobalamin metabolic process
PJH08_04810	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
PJH08_04825	COG2201	protein-glutamate methylesterase activity
PJH08_04850	COG3002	Belongs to the UPF0753 family
PJH08_04855	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
PJH08_04860	COG0659	secondary active sulfate transmembrane transporter activity
PJH08_04865	COG0732	type I restriction modification DNA specificity domain
PJH08_04915	COG1401	restriction endodeoxyribonuclease activity
PJH08_04925	COG0732	type I restriction modification DNA specificity domain
PJH08_04935	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
PJH08_04945	COG4096	Type I site-specific restriction-modification system, R (Restriction) subunit and related
PJH08_04955	COG3177	Filamentation induced by cAMP protein fic
PJH08_04975	COG3177	Filamentation induced by cAMP protein fic
PJH08_05020	COG4974	Belongs to the 'phage' integrase family
PJH08_05030	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
PJH08_05050	COG2885	chlorophyll binding
PJH08_05070	COG2373	Large extracellular alpha-helical protein
PJH08_05095	COG0527	aspartate kinase activity
PJH08_05095	COG0460	homoserine dehydrogenase
PJH08_05105	COG1959	2 iron, 2 sulfur cluster binding
PJH08_05115	COG0175	sulfate reduction
PJH08_05120	COG0175	sulfate reduction
PJH08_05130	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
PJH08_05135	COG1648	precorrin-2 dehydrogenase activity
PJH08_05135	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PJH08_05140	COG1648	precorrin-2 dehydrogenase activity
PJH08_05140	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PJH08_05145	COG0492	ferredoxin-NADP+ reductase activity
PJH08_05150	COG1045	serine acetyltransferase
PJH08_05160	COG1410	methionine synthase
PJH08_05160	COG0646	methionine synthase
PJH08_05170	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
PJH08_05180	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
PJH08_05185	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
PJH08_05190	COG0066	3-isopropylmalate dehydratase activity
PJH08_05220	COG0129	dihydroxy-acid dehydratase activity
PJH08_05225	COG0028	Belongs to the TPP enzyme family
PJH08_05235	COG0059	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate
PJH08_05240	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
PJH08_05245	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PJH08_05255	COG0076	glutamate decarboxylase activity
PJH08_05260	COG0104	Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP
PJH08_05270	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
PJH08_05280	COG0360	Binds together with S18 to 16S ribosomal RNA
PJH08_05285	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
PJH08_05290	COG0359	binds to the 23S rRNA
PJH08_05300	COG2195	Cleaves the N-terminal amino acid of tripeptides
PJH08_05330	COG0438	transferase activity, transferring glycosyl groups
PJH08_05335	COG1250	3-hydroxyacyl-CoA dehydrogenase
PJH08_05345	COG0673	inositol 2-dehydrogenase activity
PJH08_05350	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
PJH08_05365	COG0813	purine-nucleoside phosphorylase activity
PJH08_05405	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
PJH08_05410	COG2885	chlorophyll binding
PJH08_05420	COG0668	transmembrane transport
PJH08_05425	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PJH08_05430	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
PJH08_05430	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
PJH08_05450	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
PJH08_05475	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
PJH08_05495	COG0513	Belongs to the DEAD box helicase family
PJH08_05505	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
PJH08_05560	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
PJH08_05565	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
PJH08_05570	COG0484	heat shock protein binding
PJH08_05590	COG1028	Short-chain dehydrogenase reductase Sdr
PJH08_05600	COG0047	phosphoribosylformylglycinamidine synthase activity
PJH08_05600	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
PJH08_05620	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
PJH08_05625	COG2065	Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant
PJH08_05630	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
PJH08_05645	COG3958	Transketolase
PJH08_05650	COG0424	maF-like protein
PJH08_05660	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
PJH08_05665	COG3047	cAMP biosynthetic process
PJH08_05670	COG0542	response to heat
PJH08_05690	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
PJH08_05730	COG1278	Cold shock
PJH08_05740	COG1278	Cold shock
PJH08_05750	COG1979	alcohol dehydrogenase
PJH08_05760	COG1309	transcriptional regulator
PJH08_05770	COG4585	Histidine kinase
PJH08_05795	COG1522	sequence-specific DNA binding
PJH08_05830	COG0564	pseudouridine synthase activity
PJH08_05835	COG1522	sequence-specific DNA binding
PJH08_05855	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
PJH08_05860	COG0539	negative regulation of cytoplasmic translation
PJH08_05865	COG1739	Uncharacterized protein family UPF0029
PJH08_05870	COG0697	spore germination
PJH08_05875	COG1011	Hydrolase
PJH08_05880	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
PJH08_05880	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
PJH08_05890	COG2890	protein-(glutamine-N5) methyltransferase activity
PJH08_05905	COG1526	Required for formate dehydrogenase (FDH) activity. Acts as a sulfur carrier protein that transfers sulfur from IscS to the molybdenum cofactor prior to its insertion into FDH
PJH08_05925	COG0564	pseudouridine synthase activity
PJH08_05930	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
PJH08_05945	COG0167	dihydroorotate dehydrogenase activity
PJH08_05955	COG2356	endonuclease I
PJH08_05975	COG1363	Peptidase, m42
PJH08_06010	COG0488	(ABC) transporter
PJH08_06065	COG1607	acyl-coa hydrolase
PJH08_06100	COG4771	TonB-dependent receptor
PJH08_06105	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
PJH08_06160	COG1301	dicarboxylic acid transport
PJH08_06175	COG0668	transmembrane transport
PJH08_06195	COG3005	denitrification pathway
PJH08_06200	COG3303	Catalyzes the reduction of nitrite to ammonia, consuming six electrons in the process
PJH08_06205	COG1333	cytochrome c biogenesis protein
PJH08_06205	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
PJH08_06210	COG0516	GMP reductase activity
PJH08_06210	COG0517	IMP dehydrogenase activity
PJH08_06275	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PJH08_06310	COG3842	ATPase activity
PJH08_06315	COG1175	transmembrane transport
PJH08_06350	COG1840	ABC-type Fe3 transport system, periplasmic component
PJH08_06395	COG0525	valine-tRNA ligase activity
PJH08_06410	COG0436	Aminotransferase
PJH08_06415	COG0812	UDP-N-acetylmuramate dehydrogenase activity
PJH08_06440	COG0320	Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives
PJH08_06460	COG3876	Protein conserved in bacteria
PJH08_06475	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)
PJH08_06485	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
PJH08_06485	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
PJH08_06515	COG0012	GTP binding
PJH08_06535	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
PJH08_06540	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
PJH08_06545	COG3340	Belongs to the peptidase S51 family
PJH08_06580	COG0714	Associated with various cellular activities
PJH08_06585	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
PJH08_06605	COG0514	ATP-dependent DNA helicase (RecQ)
PJH08_06610	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
PJH08_06615	COG0776	regulation of translation
PJH08_06620	COG4682	membrane
PJH08_06625	COG2249	NAD(P)H dehydrogenase (quinone) activity
PJH08_06630	COG0116	Belongs to the methyltransferase superfamily
PJH08_06650	COG0602	queuosine metabolic process
PJH08_06655	COG0825	malonyl-CoA metabolic process
PJH08_06670	COG0343	queuine tRNA-ribosyltransferase activity
PJH08_06675	COG1187	pseudouridine synthase activity
PJH08_06700	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
PJH08_06705	COG0564	pseudouridine synthase activity
PJH08_06715	COG1181	Belongs to the D-alanine--D-alanine ligase family
PJH08_06720	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
PJH08_06780	COG3279	Response regulator of the LytR AlgR family
PJH08_06790	COG2205	protein histidine kinase activity
PJH08_06810	COG0784	Response regulator, receiver
PJH08_06825	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
PJH08_06830	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
PJH08_06855	COG0243	molybdopterin cofactor binding
PJH08_06870	COG0437	4 iron, 4 sulfur cluster binding
PJH08_06885	COG3012	SEC-C Motif Domain Protein
PJH08_06890	COG0460	homoserine dehydrogenase
PJH08_06890	COG0527	aspartate kinase activity
PJH08_06895	COG0083	homoserine kinase activity
PJH08_06900	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
PJH08_06905	COG1022	Amp-dependent synthetase and ligase
PJH08_06910	COG0564	pseudouridine synthase activity
PJH08_06915	COG2270	Major facilitator Superfamily
PJH08_06930	COG4771	TonB-dependent receptor
PJH08_06935	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
PJH08_06945	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
PJH08_06950	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
PJH08_06960	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
PJH08_06970	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
PJH08_06975	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)
PJH08_06995	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
PJH08_06995	COG0140	phosphoribosyl-ATP diphosphatase activity
PJH08_07000	COG0107	imidazoleglycerol-phosphate synthase activity
PJH08_07005	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
PJH08_07015	COG0131	Imidazoleglycerol-phosphate dehydratase
PJH08_07020	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
PJH08_07025	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
PJH08_07030	COG0040	Catalyzes the condensation of ATP and 5-phosphoribose 1- diphosphate to form N'-(5'-phosphoribosyl)-ATP (PR-ATP). Has a crucial role in the pathway because the rate of histidine biosynthesis seems to be controlled primarily by regulation of hisG enzymatic activity
PJH08_07035	COG1217	gtp-binding protein TYPA
PJH08_07045	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
PJH08_07050	COG1228	amidohydrolase
PJH08_07065	COG0010	Belongs to the arginase family
PJH08_07100	COG3279	Response regulator of the LytR AlgR family
PJH08_07105	COG2972	Histidine kinase
PJH08_07125	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
PJH08_07130	COG1393	Belongs to the ArsC family
PJH08_07150	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
PJH08_07155	COG0497	DNA recombination
PJH08_07185	COG1528	Iron-storage protein
PJH08_07190	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
PJH08_07210	COG4974	Belongs to the 'phage' integrase family
PJH08_07235	COG1280	lysine exporter protein (LysE YggA)
PJH08_07375	COG2161	toxin-antitoxin pair type II binding
PJH08_07380	COG4115	mRNA cleavage
PJH08_07540	COG3657	addiction module killer protein
PJH08_07545	COG3636	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
PJH08_07615	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
PJH08_07705	COG2161	toxin-antitoxin pair type II binding
PJH08_07710	COG4115	mRNA cleavage
PJH08_07775	COG2161	toxin-antitoxin pair type II binding
PJH08_07780	COG4115	mRNA cleavage
PJH08_07860	COG0517	IMP dehydrogenase activity
PJH08_07885	COG0280	phosphate acetyltransferase
PJH08_07910	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
PJH08_07920	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
PJH08_07925	COG0253	Catalyzes the stereoinversion of LL-2,6- diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso- DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan
PJH08_07935	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
PJH08_07970	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
PJH08_07975	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
PJH08_07980	COG0824	Thioesterase
PJH08_07985	COG2096	Adenosyltransferase
PJH08_07995	COG0653	protein targeting
PJH08_08010	COG0692	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
PJH08_08020	COG1620	l-lactate permease
PJH08_08025	COG1304	FMN binding
PJH08_08040	COG0534	Mate efflux family protein
PJH08_08045	COG2077	Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides
PJH08_08055	COG1674	ftsk spoiiie
PJH08_08070	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
PJH08_08070	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
PJH08_08080	COG0482	sulfurtransferase activity
PJH08_08095	COG3118	belongs to the thioredoxin family
PJH08_08105	COG0018	arginyl-trna synthetase
PJH08_08110	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
PJH08_08165	COG0488	(ABC) transporter
PJH08_08175	COG1044	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
PJH08_08180	COG0446	pyridine nucleotide-disulphide oxidoreductase
PJH08_08180	COG1902	pentaerythritol trinitrate reductase activity
PJH08_08185	COG1902	pentaerythritol trinitrate reductase activity
PJH08_08185	COG0446	pyridine nucleotide-disulphide oxidoreductase
PJH08_08220	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
PJH08_08230	COG0217	transcriptional regulatory protein
PJH08_08240	COG0199	Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site
PJH08_08245	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
PJH08_08250	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
PJH08_08255	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
PJH08_08260	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
PJH08_08265	COG0255	Belongs to the universal ribosomal protein uL29 family
PJH08_08270	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
PJH08_08275	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
PJH08_08280	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
PJH08_08285	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
PJH08_08290	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
PJH08_08295	COG0089	rRNA binding
PJH08_08300	COG0088	Forms part of the polypeptide exit tunnel
PJH08_08305	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
PJH08_08310	COG0051	transcription antitermination factor activity, RNA binding
PJH08_08315	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
PJH08_08320	COG0049	tRNA binding
PJH08_08325	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
PJH08_08330	COG1629	transport
PJH08_08340	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
PJH08_08350	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
PJH08_08365	COG2003	Belongs to the UPF0758 family
PJH08_08370	COG0569	domain protein
PJH08_08395	COG1132	(ABC) transporter
PJH08_08420	COG1917	Cupin 2, conserved barrel domain protein
PJH08_08435	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
PJH08_08440	COG3844	kynureninase activity
PJH08_08450	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
PJH08_08460	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
PJH08_08460	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
PJH08_08465	COG0076	glutamate decarboxylase activity
PJH08_08495	COG0069	glutamate synthase activity
PJH08_08500	COG0254	rRNA binding
PJH08_08515	COG1028	Short-chain dehydrogenase reductase Sdr
PJH08_08545	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
PJH08_08550	COG1917	Cupin 2, conserved barrel domain protein
PJH08_08550	COG2207	Transcriptional regulator
PJH08_08560	COG1858	cytochrome C peroxidase
PJH08_08570	COG1253	flavin adenine dinucleotide binding
PJH08_08575	COG0783	Belongs to the Dps family
PJH08_08585	COG0659	secondary active sulfate transmembrane transporter activity
PJH08_08590	COG2065	Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant
PJH08_08595	COG0540	Belongs to the ATCase OTCase family
PJH08_08610	COG1234	tRNA 3'-trailer cleavage
PJH08_08625	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
PJH08_08630	COG0326	Molecular chaperone. Has ATPase activity
PJH08_08715	COG1385	rRNA (uridine-N3-)-methyltransferase activity
PJH08_08730	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
PJH08_08735	COG1472	Belongs to the glycosyl hydrolase 3 family
PJH08_08790	COG0443	Heat shock 70 kDa protein
PJH08_08795	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
PJH08_08805	COG1654	Acts both as a biotin-- acetyl-CoA-carboxylase ligase and a biotin-operon repressor. In the presence of ATP, BirA activates biotin to form the BirA-biotinyl-5'-adenylate (BirA-bio- 5'-AMP or holoBirA) complex. HoloBirA can either transfer the biotinyl moiety to the biotin carboxyl carrier protein (BCCP) subunit of acetyl-CoA carboxylase, or bind to the biotin operator site and inhibit transcription of the operon
PJH08_08805	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
PJH08_08810	COG0799	negative regulation of ribosome biogenesis
PJH08_08815	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
PJH08_08825	COG4589	Belongs to the CDS family
PJH08_08860	COG0247	lactate metabolic process
PJH08_08860	COG0277	FAD linked oxidase domain protein
PJH08_08880	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
PJH08_08895	COG1629	transport
PJH08_08910	COG1404	Belongs to the peptidase S8 family
PJH08_08915	COG2234	aminopeptidase activity
PJH08_08920	COG2877	3-deoxy-8-phosphooctulonate synthase activity
PJH08_08935	COG3530	Putative quorum-sensing-regulated virulence factor
PJH08_08955	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
PJH08_08975	COG2072	flavoprotein involved in K transport
PJH08_09010	COG0589	response to stress
PJH08_09025	COG0348	domain, Protein
PJH08_09060	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
PJH08_09070	COG1586	Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine
PJH08_09075	COG4262	Catalyzes the irreversible transfer of a propylamine group from the amino donor S-adenosylmethioninamine (decarboxy- AdoMet) to putrescine (1,4-diaminobutane) to yield spermidine
PJH08_09095	COG1842	Phage shock protein A
PJH08_09105	COG1396	sequence-specific DNA binding
PJH08_09115	COG0635	Involved in the biosynthesis of porphyrin-containing compound
PJH08_09120	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
PJH08_09130	COG2217	Heavy metal translocating P-type atpase
PJH08_09145	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
PJH08_09150	COG0085	RNA polymerase activity
PJH08_09155	COG0222	ribosome binding
PJH08_09160	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
PJH08_09165	COG0081	regulation of translation
PJH08_09170	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
PJH08_09190	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
PJH08_09220	COG4974	Belongs to the 'phage' integrase family
PJH08_09225	COG0828	Belongs to the bacterial ribosomal protein bS21 family
PJH08_09230	COG1960	acyl-CoA dehydrogenase activity
PJH08_09240	COG1115	amino acid carrier protein
PJH08_09275	COG1611	Belongs to the LOG family
PJH08_09290	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)
PJH08_09310	COG2816	NAD+ diphosphatase activity
PJH08_09315	COG0778	Nitroreductase
PJH08_09320	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
PJH08_09350	COG0450	alkyl hydroperoxide reductase
PJH08_09360	COG3264	Mechanosensitive ion channel
PJH08_09360	COG3096	Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division
PJH08_09365	COG1668	transmembrane transport
PJH08_09370	COG4152	abc transporter atp-binding protein
PJH08_09380	COG1250	3-hydroxyacyl-CoA dehydrogenase
PJH08_09380	COG1024	Enoyl-CoA hydratase
PJH08_09385	COG0183	Belongs to the thiolase family
PJH08_09390	COG1960	acyl-CoA dehydrogenase activity
PJH08_09400	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
PJH08_09410	COG0174	glutamine synthetase
PJH08_09460	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
PJH08_09465	COG2264	protein methyltransferase activity
PJH08_09470	COG0149	triose-phosphate isomerase activity
PJH08_09480	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PJH08_09490	COG0601	transmembrane transport
PJH08_09495	COG0284	orotidine-5'-phosphate decarboxylase activity
PJH08_09505	COG1629	transport
PJH08_09505	COG4206	TonB-dependent receptor
PJH08_09510	COG3279	Response regulator of the LytR AlgR family
PJH08_09530	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
PJH08_09535	COG2986	histidine ammonia-lyase
PJH08_09540	COG0583	DNA-binding transcription factor activity
PJH08_09550	COG1703	isobutyryl-CoA mutase activity
PJH08_09550	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
PJH08_09550	COG1884	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
PJH08_09570	COG0159	tryptophan synthase activity
PJH08_09575	COG0133	tryptophan synthase activity
PJH08_09580	COG0135	phosphoribosylanthranilate isomerase activity
PJH08_09585	COG0134	indole-3-glycerol-phosphate synthase activity
PJH08_09590	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
PJH08_09595	COG0512	Glutamine amidotransferase of anthranilate synthase
PJH08_09600	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
PJH08_09605	COG0367	asparagine synthase
PJH08_09610	COG1038	Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second
PJH08_09615	COG0187	DNA topoisomerase II activity
PJH08_09630	COG2884	Cell division ATP-binding protein ftsE
PJH08_09650	COG0545	Peptidyl-prolyl cis-trans isomerase
PJH08_09655	COG1595	DNA-templated transcription, initiation
PJH08_09670	COG1127	ABC transporter
PJH08_09675	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
PJH08_09690	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
PJH08_09700	COG3645	SOS response
PJH08_09745	COG0183	Belongs to the thiolase family
PJH08_09750	COG0791	NLP P60 protein
PJH08_09760	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
PJH08_09765	COG0542	response to heat
PJH08_09770	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PJH08_09795	COG2733	membrane
PJH08_09820	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
PJH08_09850	COG4447	cellulose binding
PJH08_09870	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
PJH08_09930	COG1032	radical SAM domain protein
PJH08_09955	COG2360	Functions in the N-end rule pathway of protein degradation where it conjugates Leu, Phe and, less efficiently, Met from aminoacyl-tRNAs to the N-termini of proteins containing an N-terminal arginine or lysine
PJH08_09960	COG2509	5-formyltetrahydrofolate cyclo-ligase activity
PJH08_09990	COG4191	Histidine kinase
PJH08_10000	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
PJH08_10010	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
PJH08_10025	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
PJH08_10030	COG0339	signal peptide processing
PJH08_10095	COG1253	flavin adenine dinucleotide binding
PJH08_10120	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
PJH08_10150	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
PJH08_10160	COG1705	Flagellar rod assembly protein muramidase FlgJ
PJH08_10160	COG1388	LysM domain
PJH08_10175	COG0488	(ABC) transporter
PJH08_10205	COG1262	PFAM Formylglycine-generating sulfatase enzyme
PJH08_10225	COG3604	Transcriptional regulator
PJH08_10240	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
PJH08_10245	COG0459	protein refolding
PJH08_10260	COG0820	rRNA (adenine-C2-)-methyltransferase activity
PJH08_10265	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
PJH08_10285	COG2814	Major facilitator Superfamily
PJH08_10295	COG0635	Involved in the biosynthesis of porphyrin-containing compound
PJH08_10300	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
PJH08_10305	COG1001	Belongs to the metallo-dependent hydrolases superfamily. Adenine deaminase family
PJH08_10310	COG1866	Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA
PJH08_10315	COG2363	Small membrane protein
PJH08_10335	COG1943	Transposase
PJH08_10340	COG1271	oxidase subunit
PJH08_10345	COG1294	oxidase, subunit
PJH08_10355	COG2267	carboxylic ester hydrolase activity
PJH08_10360	COG4123	Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC)
PJH08_10370	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
PJH08_10370	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
PJH08_10375	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
PJH08_10405	COG0519	Catalyzes the synthesis of GMP from XMP
PJH08_10410	COG0616	signal peptide processing
PJH08_10420	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
PJH08_10475	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)
PJH08_10480	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
PJH08_10485	COG0291	Belongs to the bacterial ribosomal protein bL35 family
PJH08_10500	COG2759	Belongs to the formate--tetrahydrofolate ligase family
PJH08_10505	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
PJH08_10510	COG0563	adenylate kinase activity
PJH08_10515	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
PJH08_10520	COG0791	NLP P60 protein
PJH08_10525	COG0763	Condensation of UDP-2,3-diacylglucosamine and 2,3- diacylglucosamine-1-phosphate to form lipid A disaccharide, a precursor of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
PJH08_10530	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
PJH08_10535	COG0793	Belongs to the peptidase S41A family
PJH08_10560	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
PJH08_10570	COG2333	competence protein COMEC
PJH08_10570	COG0658	competence protein
PJH08_10585	COG3104	oligopeptide transport
PJH08_10590	COG1506	peptidase
PJH08_10590	COG0823	Involved in the tonB-independent uptake of proteins
PJH08_10605	COG2081	HI0933 family
PJH08_10630	COG1629	transport
PJH08_10660	COG1187	pseudouridine synthase activity
PJH08_10685	COG0138	bifunctional purine biosynthesis protein purh
PJH08_10690	COG1077	Cell shape determining protein MreB Mrl
PJH08_10705	COG0768	penicillin binding
PJH08_10710	COG0772	Belongs to the SEDS family
PJH08_10790	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)
PJH08_10800	COG0333	Belongs to the bacterial ribosomal protein bL32 family
PJH08_10805	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
PJH08_10810	COG0511	ligase activity, forming carbon-carbon bonds
PJH08_10815	COG0439	Biotin carboxylase
PJH08_10820	COG1519	Transferase
PJH08_10820	COG0220	tRNA (guanine-N7-)-methyltransferase activity
PJH08_10825	COG2391	methyltransferase activity
PJH08_10840	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
PJH08_10860	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)
PJH08_10865	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
PJH08_10880	COG3655	Transcriptional regulator
PJH08_10890	COG1522	sequence-specific DNA binding
PJH08_10905	COG3409	Peptidoglycan-binding domain 1 protein
PJH08_10905	COG0793	Belongs to the peptidase S41A family
PJH08_10925	COG2205	protein histidine kinase activity
PJH08_10935	COG4942	peptidase
PJH08_10940	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
PJH08_10945	COG0194	GDP metabolic process
PJH08_10950	COG1561	YicC-like family, N-terminal region
PJH08_10960	COG1652	LysM domain
PJH08_10965	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
PJH08_10975	COG0316	Belongs to the HesB IscA family
PJH08_10980	COG0719	Fe-S assembly protein
PJH08_10985	COG0396	ATPase activity
PJH08_10990	COG0719	Fe-S assembly protein
PJH08_10995	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
PJH08_11010	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PJH08_11015	COG0668	transmembrane transport
PJH08_11020	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
PJH08_11030	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
PJH08_11045	COG1757	Na H antiporter
PJH08_11055	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
PJH08_11065	COG2824	Alkylphosphonate utilization operon protein PhnA
PJH08_11070	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
PJH08_11075	COG0228	four-way junction DNA binding
PJH08_11080	COG1278	Cold shock
PJH08_11110	COG0792	nuclease activity
PJH08_11115	COG1619	proteins homologs of microcin C7 resistance protein MccF
PJH08_11130	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PJH08_11130	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PJH08_11140	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
PJH08_11145	COG0629	single-stranded DNA binding
PJH08_11160	COG0469	pyruvate kinase activity
PJH08_11170	COG0571	ribonuclease III activity
PJH08_11175	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
PJH08_11180	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
PJH08_11190	COG0328	RNA-DNA hybrid ribonuclease activity
PJH08_11190	COG3341	Caulimovirus viroplasmin
PJH08_11205	COG0668	transmembrane transport
PJH08_11210	COG1214	PFAM Peptidase M22, glycoprotease
PJH08_11225	COG2322	membrane
PJH08_11230	COG1999	signal sequence binding
PJH08_11250	COG1845	cytochrome c oxidase, subunit III
PJH08_11255	COG0109	protoheme IX farnesyltransferase activity
PJH08_11305	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
PJH08_11310	COG0207	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 reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis
PJH08_11315	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
PJH08_11325	COG2025	fatty acid beta-oxidation using acyl-CoA dehydrogenase
PJH08_11330	COG2086	electron transfer activity
PJH08_11335	COG0508	dehydrogenase complex catalyzes the overall conversion of
PJH08_11335	COG0022	dehydrogenase e1 component
PJH08_11345	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
PJH08_11350	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
PJH08_11365	COG0037	tRNA processing
PJH08_11370	COG0785	Cytochrome C biogenesis protein
PJH08_11375	COG0606	chelatase, subunit chli
PJH08_11380	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PJH08_11385	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PJH08_11395	COG1528	Iron-storage protein
PJH08_11400	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
PJH08_11435	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
PJH08_11445	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
PJH08_11455	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
PJH08_11460	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
PJH08_11465	COG0297	glycogen (starch) synthase activity
PJH08_11475	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
PJH08_11490	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
PJH08_11500	COG1115	amino acid carrier protein
PJH08_11520	COG1476	TRANSCRIPTIONal
PJH08_11525	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)
PJH08_11575	COG0464	growth
PJH08_11620	COG0584	glycerophosphoryl diester phosphodiesterase
PJH08_11625	COG1288	antiporter activity
PJH08_11635	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
PJH08_11650	COG1999	signal sequence binding
PJH08_11655	COG0750	zinc metalloprotease
PJH08_11670	COG0527	aspartate kinase activity
PJH08_11680	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
PJH08_11715	COG3118	belongs to the thioredoxin family
PJH08_11715	COG0492	ferredoxin-NADP+ reductase activity
PJH08_11720	COG1408	metallophosphoesterase
PJH08_11725	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
PJH08_11725	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
PJH08_11745	COG1040	competence protein
PJH08_11750	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
PJH08_11770	COG0423	glycine-tRNA ligase activity
PJH08_11785	COG1629	transport
PJH08_11790	COG2814	Major facilitator Superfamily
PJH08_11800	COG1381	Involved in DNA repair and RecF pathway recombination
PJH08_11830	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
PJH08_11830	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
PJH08_11840	COG2255	four-way junction helicase activity
PJH08_11845	COG0843	Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B
PJH08_11850	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
PJH08_11875	COG0437	4 iron, 4 sulfur cluster binding
PJH08_11890	COG1253	flavin adenine dinucleotide binding
PJH08_11905	COG2151	metal-sulfur cluster biosynthetic enzyme
PJH08_11910	COG2166	iron-sulfur cluster assembly
PJH08_11920	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
PJH08_11935	COG4771	TonB-dependent receptor
PJH08_11955	COG0810	Interacts with outer membrane receptor proteins that carry out high-affinity binding and energy dependent uptake into the periplasmic space of specific substrates. It could act to transduce energy from the cytoplasmic membrane to specific energy- requiring processes in the outer membrane, resulting in the release into the periplasm of ligands bound by these outer membrane proteins
PJH08_11960	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
PJH08_11970	COG0513	Belongs to the DEAD box helicase family
PJH08_11980	COG2209	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
PJH08_11985	COG1347	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
PJH08_11990	COG2869	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
PJH08_11995	COG1805	sodium ion transport
PJH08_12000	COG1726	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
PJH08_12010	COG2967	ApaG domain
PJH08_12030	COG1012	belongs to the aldehyde dehydrogenase family
PJH08_12035	COG0612	Peptidase, M16
PJH08_12040	COG0494	nUDIX hydrolase
PJH08_12065	COG0357	Ribosomal RNA small subunit methyltransferase G
PJH08_12070	COG3239	Fatty acid desaturase
PJH08_12075	COG0436	Aminotransferase
PJH08_12090	COG0084	hydrolase, TatD family'
PJH08_12100	COG0590	tRNA wobble adenosine to inosine editing
PJH08_12115	COG0714	Associated with various cellular activities
PJH08_12130	COG2304	oxidoreductase activity
PJH08_12135	COG2304	oxidoreductase activity
PJH08_12160	COG0659	secondary active sulfate transmembrane transporter activity
PJH08_12165	COG0288	reversible hydration of carbon dioxide
PJH08_12170	COG0196	riboflavin kinase activity
PJH08_12175	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)
PJH08_12190	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
PJH08_12195	COG2239	Acts as a magnesium transporter
PJH08_12205	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
PJH08_12220	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
PJH08_12225	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)
PJH08_12230	COG0224	Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is believed to be important in regulating ATPase activity and the flow of protons through the CF(0) complex
PJH08_12235	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
PJH08_12245	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
PJH08_12250	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
PJH08_12255	COG0356	it plays a direct role in the translocation of protons across the membrane
PJH08_12285	COG1388	LysM domain
PJH08_12285	COG0791	NLP P60 protein
PJH08_12290	COG0708	Exodeoxyribonuclease III
PJH08_12300	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
PJH08_12305	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
PJH08_12310	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
PJH08_12330	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)
PJH08_12340	COG0006	proline dipeptidase activity
PJH08_12345	COG0513	Belongs to the DEAD box helicase family
PJH08_12375	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
PJH08_12400	COG2095	MarC family integral membrane protein
PJH08_12410	COG2356	endonuclease I
PJH08_12420	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
PJH08_12425	COG1053	succinate dehydrogenase
PJH08_12435	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
PJH08_12435	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
PJH08_12450	COG1505	serine-type exopeptidase activity
PJH08_12455	COG3842	ATPase activity
PJH08_12460	COG3361	conserved protein (COG2071)
PJH08_12490	COG1012	belongs to the aldehyde dehydrogenase family
PJH08_12515	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
PJH08_12530	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
PJH08_12535	COG0756	dUTP diphosphatase activity
PJH08_12540	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
PJH08_12550	COG1187	pseudouridine synthase activity
PJH08_12565	COG2153	protein acetylation
PJH08_12570	COG0698	ribose 5-phosphate isomerase