locus-tag	class	description
IM40_00010	COG0592	DNA-directed DNA polymerase activity
IM40_00015	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
IM40_00020	COG0187	DNA topoisomerase II activity
IM40_00045	COG1183	phosphatidylcholine synthase activity
IM40_00050	COG3243	poly(R)-hydroxyalkanoic acid synthase
IM40_00060	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)
IM40_00065	COG1297	OPT oligopeptide transporter protein
IM40_00090	COG0367	asparagine synthase
IM40_00105	COG0762	integral membrane protein
IM40_00140	COG0367	asparagine synthase
IM40_00200	COG0443	Heat shock 70 kDa protein
IM40_00205	COG0484	heat shock protein binding
IM40_00230	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
IM40_00240	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
IM40_00240	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
IM40_00245	COG0230	Belongs to the bacterial ribosomal protein bL34 family
IM40_00255	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
IM40_00295	COG0517	IMP dehydrogenase activity
IM40_00295	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
IM40_00320	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
IM40_00330	COG2814	Major facilitator Superfamily
IM40_00335	COG0531	amino acid
IM40_00355	COG2835	tetraacyldisaccharide 4'-kinase activity
IM40_00365	COG4133	protoheme IX ABC transporter activity
IM40_00370	COG0494	nUDIX hydrolase
IM40_00375	COG0220	tRNA (guanine-N7-)-methyltransferase activity
IM40_00380	COG0142	geranyltranstransferase activity
IM40_00435	COG1678	Uncharacterized ACR, COG1678
IM40_00450	COG1830	Aldolase
IM40_00465	COG2067	long-chain fatty acid transport protein
IM40_00470	COG0318	PFAM AMP-dependent synthetase and ligase
IM40_00475	COG0183	Belongs to the thiolase family
IM40_00480	COG1024	Enoyl-CoA hydratase
IM40_00480	COG1250	3-hydroxyacyl-CoA dehydrogenase
IM40_00485	COG1960	acyl-CoA dehydrogenase activity
IM40_00505	COG0187	DNA topoisomerase II activity
IM40_00560	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
IM40_00565	COG0635	Involved in the biosynthesis of porphyrin-containing compound
IM40_00575	COG2203	Gaf domain
IM40_00575	COG4251	negative regulation of phosphorylation
IM40_00575	COG5001	Diguanylate cyclase
IM40_00575	COG3706	GGDEF domain
IM40_00590	COG0109	protoheme IX farnesyltransferase activity
IM40_00610	COG3808	pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for
IM40_00630	COG0071	Belongs to the small heat shock protein (HSP20) family
IM40_00655	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
IM40_00665	COG2332	Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH
IM40_00675	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
IM40_00680	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
IM40_00690	COG0356	it plays a direct role in the translocation of protons across the membrane
IM40_00695	COG0064	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
IM40_00700	COG0154	amidase activity
IM40_00705	COG0721	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
IM40_00710	COG2226	methyltransferase
IM40_00715	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
IM40_00765	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
IM40_00780	COG3750	Belongs to the UPF0335 family
IM40_00840	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
IM40_00855	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
IM40_00900	COG2223	nitrite transmembrane transporter activity
IM40_00920	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
IM40_00920	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
IM40_00930	COG0166	Belongs to the GPI family
IM40_00935	COG0612	Peptidase, M16
IM40_00955	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)
IM40_00960	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
IM40_00975	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
IM40_00980	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
IM40_01010	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
IM40_01015	COG2171	N-acyltransferase activity
IM40_01025	COG0482	sulfurtransferase activity
IM40_01040	COG0658	competence protein
IM40_01040	COG2333	competence protein COMEC
IM40_01055	COG3316	Transposase and inactivated derivatives
IM40_01100	COG0219	Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S- adenosyl-L-methionine to the 2'-OH of the wobble nucleotide
IM40_01110	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
IM40_01120	COG3474	cytochrome
IM40_01125	COG4166	transmembrane transport
IM40_01130	COG4174	ABC transporter (Permease)
IM40_01135	COG4239	(ABC) transporter, permease
IM40_01140	COG4172	Belongs to the ABC transporter superfamily
IM40_01145	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
IM40_01155	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
IM40_01160	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
IM40_01165	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
IM40_01180	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
IM40_01215	COG0415	Belongs to the DNA photolyase family
IM40_01235	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
IM40_01245	COG0105	UTP biosynthetic process
IM40_01250	COG2927	DNA polymerase III (CHI subunit)
IM40_01255	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
IM40_01260	COG0267	Belongs to the bacterial ribosomal protein bL33 family
IM40_01270	COG2860	membrane
IM40_01290	COG1132	(ABC) transporter
IM40_01305	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
IM40_01310	COG3104	oligopeptide transport
IM40_01320	COG0488	(ABC) transporter
IM40_01350	COG0321	lipoyl(octanoyl) transferase activity
IM40_01370	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
IM40_01380	COG0288	reversible hydration of carbon dioxide
IM40_01405	COG0218	Necessary for normal cell division and for the maintenance of normal septation
IM40_01480	COG2271	Major facilitator Superfamily
IM40_01495	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
IM40_01500	COG0459	protein refolding
IM40_01550	COG1741	Belongs to the pirin family
IM40_01575	COG2226	methyltransferase
IM40_01625	COG0756	dUTP diphosphatase activity
IM40_01725	COG0242	peptide deformylase activity
IM40_01740	COG0681	Belongs to the peptidase S26 family
IM40_01745	COG0571	ribonuclease III activity
IM40_01750	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
IM40_01785	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
IM40_01795	COG1530	ribonuclease E activity
IM40_01800	COG3024	Inhibits all the catalytic activities of DNA gyrase by preventing its interaction with DNA. Acts by binding directly to the C-terminal domain of GyrB, which probably disrupts DNA binding by the gyrase
IM40_01805	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
IM40_01810	COG0616	signal peptide processing
IM40_01815	COG0473	3-isopropylmalate dehydrogenase activity
IM40_01840	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
IM40_01855	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
IM40_01880	COG1024	Enoyl-CoA hydratase
IM40_01885	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
IM40_01895	COG0697	spore germination
IM40_01960	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
IM40_01965	COG1127	ABC transporter
IM40_01980	COG0670	Belongs to the BI1 family
IM40_02000	COG0049	tRNA binding
IM40_02035	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
IM40_02040	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
IM40_02045	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
IM40_02050	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
IM40_02055	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
IM40_02060	COG0255	Belongs to the universal ribosomal protein uL29 family
IM40_02070	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
IM40_02075	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
IM40_02090	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
IM40_02095	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
IM40_02100	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
IM40_02105	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
IM40_02110	COG1841	ribosomal large subunit assembly
IM40_02115	COG0200	Binds to the 23S rRNA
IM40_02125	COG0563	adenylate kinase activity
IM40_02130	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
IM40_02135	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
IM40_02145	COG0203	ribosomal protein L17
IM40_02150	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
IM40_02155	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
IM40_02165	COG3177	Filamentation induced by cAMP protein fic
IM40_02180	COG0583	DNA-binding transcription factor activity
IM40_02205	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
IM40_02370	COG2026	Addiction module toxin, RelE StbE family
IM40_02385	COG2220	Zn-dependent hydrolases of the beta-lactamase fold
IM40_02450	COG2154	pterin-4-alpha-carbinolamine dehydratase
IM40_02500	COG2963	transposase activity
IM40_02580	COG3104	oligopeptide transport
IM40_02680	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
IM40_02805	COG2001	Belongs to the MraZ family
IM40_02810	COG0275	rRNA processing
IM40_02825	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
IM40_02830	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
IM40_02835	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
IM40_02855	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
IM40_02870	COG1589	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic. May control correct divisome assembly
IM40_02875	COG0849	cell division
IM40_02885	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
IM40_02900	COG0113	porphobilinogen synthase activity
IM40_02920	COG3202	ADP transmembrane transporter activity
IM40_02930	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
IM40_02940	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
IM40_02955	COG0776	regulation of translation
IM40_02970	COG4695	Portal protein
IM40_03010	COG0519	Catalyzes the synthesis of GMP from XMP
IM40_03015	COG0114	fumarate hydratase activity
IM40_03025	COG0590	tRNA wobble adenosine to inosine editing
IM40_03030	COG1136	(ABC) transporter
IM40_03035	COG4591	ABC-type transport system involved in lipoprotein release permease component
IM40_03040	COG0442	prolyl-tRNA aminoacylation
IM40_03055	COG2967	ApaG domain
IM40_03060	COG0824	Thioesterase
IM40_03095	COG0823	Involved in the tonB-independent uptake of proteins
IM40_03100	COG2885	chlorophyll binding
IM40_03105	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
IM40_03110	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)
IM40_03130	COG0149	triose-phosphate isomerase activity
IM40_03145	COG0504	CTP synthase activity
IM40_03150	COG2877	3-deoxy-8-phosphooctulonate synthase activity
IM40_03180	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
IM40_03190	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
IM40_03250	COG0717	Belongs to the dCTP deaminase family
IM40_03270	COG2902	Dehydrogenase
IM40_03275	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)
IM40_03295	COG0859	PFAM glycosyl transferase family 9
IM40_03300	COG1846	Transcriptional regulator
IM40_03320	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
IM40_03325	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
IM40_03335	COG1268	BioY protein
IM40_03350	COG0261	This protein binds to 23S rRNA in the presence of protein L20
IM40_03355	COG0211	Belongs to the bacterial ribosomal protein bL27 family
IM40_03365	COG0799	negative regulation of ribosome biogenesis
IM40_03390	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
IM40_03400	COG0793	Belongs to the peptidase S41A family
IM40_03405	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
IM40_03410	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
IM40_03425	COG0450	alkyl hydroperoxide reductase
IM40_03440	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
IM40_03445	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
IM40_03525	COG0210	DNA helicase
IM40_03605	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
IM40_03625	COG0564	pseudouridine synthase activity
IM40_03630	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
IM40_03635	COG0587	DNA-directed DNA polymerase activity
IM40_03640	COG3023	N-Acetylmuramoyl-L-alanine amidase
IM40_03650	COG1573	uracil-dna glycosylase
IM40_03655	COG0382	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate
IM40_03670	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
IM40_03675	COG0497	DNA recombination
IM40_03680	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
IM40_03685	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
IM40_03700	COG0724	RNA recognition motif
IM40_03740	COG2155	Conserved Protein
IM40_03890	COG0583	DNA-binding transcription factor activity
IM40_03925	COG2173	Catalyzes hydrolysis of the D-alanyl-D-alanine dipeptide
IM40_03960	COG1234	tRNA 3'-trailer cleavage
IM40_04030	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)
IM40_04045	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
IM40_04055	COG4974	Belongs to the 'phage' integrase family
IM40_04060	COG0825	malonyl-CoA metabolic process
IM40_04075	COG1210	Utp--glucose-1-phosphate uridylyltransferase
IM40_04080	COG1004	Belongs to the UDP-glucose GDP-mannose dehydrogenase family
IM40_04100	COG0009	L-threonylcarbamoyladenylate synthase
IM40_04110	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
IM40_04115	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
IM40_04120	COG0552	protein localization to endoplasmic reticulum
IM40_04125	COG1734	Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters
IM40_04130	COG1351	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor, and NAD(P)H and FADH(2) as the reductant
IM40_04165	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
IM40_04180	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
IM40_04185	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
IM40_04190	COG0776	regulation of translation
IM40_04195	COG1435	thymidine kinase activity
IM40_04215	COG0668	transmembrane transport
IM40_04220	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
IM40_04250	COG3344	reverse transcriptase
IM40_04275	COG0828	Belongs to the bacterial ribosomal protein bS21 family
IM40_04290	COG1194	a g-specific adenine glycosylase
IM40_04300	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
IM40_04320	COG0330	HflC and HflK could
IM40_04325	COG2989	Protein conserved in bacteria
IM40_04345	COG2114	Pfam Adenylate and Guanylate cyclase catalytic domain
IM40_04355	COG0583	DNA-binding transcription factor activity
IM40_04365	COG1177	transmembrane transport
IM40_04370	COG1176	ABC-type spermidine putrescine transport system, permease component I
IM40_04375	COG3842	ATPase activity
IM40_04380	COG2814	Major facilitator Superfamily
IM40_04385	COG5265	(ABC) transporter
IM40_04390	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
IM40_04415	COG1872	DUF167
IM40_04430	COG1108	ABC-type Mn2 Zn2 transport systems permease components
IM40_04435	COG1121	(ABC) transporter
IM40_04440	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
IM40_04525	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
IM40_04530	COG0233	cytoplasmic translational termination
IM40_04540	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
IM40_04545	COG0052	Belongs to the universal ribosomal protein uS2 family
IM40_04570	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
IM40_04570	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
IM40_04575	COG0775	Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively
IM40_04580	COG2267	carboxylic ester hydrolase activity
IM40_04585	COG3638	Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system
IM40_04605	COG0349	Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides
IM40_04615	COG2890	protein-(glutamine-N5) methyltransferase activity
IM40_04620	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
IM40_04625	COG0124	histidyl-tRNA synthetase
IM40_04635	COG2070	2-Nitropropane dioxygenase
IM40_04645	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
IM40_04650	COG1127	ABC transporter
IM40_04660	COG1286	toxin biosynthetic process
IM40_04690	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
IM40_04695	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
IM40_04700	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
IM40_04705	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
IM40_04755	COG1132	(ABC) transporter
IM40_04770	COG0367	asparagine synthase
IM40_04785	COG1253	flavin adenine dinucleotide binding
IM40_04790	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
IM40_04795	COG1702	phosphate starvation-inducible protein PhoH
IM40_04800	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
IM40_04810	COG0519	Catalyzes the synthesis of GMP from XMP
IM40_04815	COG1214	PFAM Peptidase M22, glycoprotease
IM40_04845	COG1160	GTP binding
IM40_04850	COG1028	Short-chain dehydrogenase reductase Sdr
IM40_04855	COG0742	ribosomal rna small subunit methyltransferase
IM40_04890	COG0343	queuine tRNA-ribosyltransferase activity
IM40_04900	COG0227	Belongs to the bacterial ribosomal protein bL28 family
IM40_04910	COG1207	Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP- GlcNAc). The C-terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N-acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5- monophosphate (from uridine 5-triphosphate), a reaction catalyzed by the N-terminal domain
IM40_04915	COG3108	Peptidase M15
IM40_04925	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
IM40_04935	COG1923	regulation of RNA biosynthetic process
IM40_04970	COG0291	Belongs to the bacterial ribosomal protein bL35 family
IM40_04975	COG0292	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit
IM40_04990	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
IM40_05075	COG0712	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
IM40_05085	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
IM40_05090	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
IM40_05095	COG0355	proton-transporting ATP synthase activity, rotational mechanism
IM40_05105	COG0697	spore germination
IM40_05115	COG3118	belongs to the thioredoxin family
IM40_05125	COG3852	Histidine kinase
IM40_05130	COG0006	proline dipeptidase activity
IM40_05155	COG0148	phosphopyruvate hydratase activity
IM40_05170	COG3655	Transcriptional regulator
IM40_05195	COG1126	abc transporter atp-binding protein
IM40_05200	COG0765	amino acid transport
IM40_05220	COG0793	Belongs to the peptidase S41A family
IM40_05220	COG4946	Tricorn protease homolog
IM40_05230	COG0321	lipoyl(octanoyl) transferase activity
IM40_05230	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
IM40_05235	COG0084	hydrolase, TatD family'
IM40_05245	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
IM40_05250	COG1686	Belongs to the peptidase S11 family
IM40_05260	COG1434	Gram-negative-bacterium-type cell wall biogenesis
IM40_05275	COG0024	Methionine aminopeptidase
IM40_05295	COG1007	ATP synthesis coupled electron transport
IM40_05305	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
IM40_05310	COG0713	ATP synthesis coupled electron transport
IM40_05315	COG0839	Belongs to the complex I subunit 6 family
IM40_05350	COG0508	dehydrogenase complex catalyzes the overall conversion of
IM40_05360	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
IM40_05365	COG0335	large ribosomal subunit rRNA binding
IM40_05380	COG0228	four-way junction DNA binding
IM40_05390	COG2155	Conserved Protein
IM40_05400	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
IM40_05405	COG4974	Belongs to the 'phage' integrase family
IM40_05455	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
IM40_05470	COG2333	competence protein COMEC
IM40_05470	COG0658	competence protein
IM40_05475	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)
IM40_05530	COG0012	GTP binding
IM40_05535	COG0193	aminoacyl-tRNA hydrolase activity
IM40_05540	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
IM40_05565	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
IM40_05570	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
IM40_05580	COG4166	transmembrane transport
IM40_05585	COG1845	cytochrome c oxidase, subunit III
IM40_05595	COG0612	Peptidase, M16
IM40_05615	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
IM40_05620	COG1692	metallophosphoesterase
IM40_05650	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
IM40_05660	COG0330	HflC and HflK could
IM40_05670	COG2945	thiolester hydrolase activity
IM40_05705	COG0822	iron-sulfur transferase activity
IM40_05710	COG0316	Belongs to the HesB IscA family
IM40_05720	COG0443	Heat shock 70 kDa protein
IM40_05750	COG0280	phosphate acetyltransferase
IM40_05750	COG0281	malic enzyme
IM40_05755	COG2239	Acts as a magnesium transporter
IM40_05760	COG0183	Belongs to the thiolase family
IM40_05830	COG2801	Transposase and inactivated derivatives
IM40_05850	COG0784	Response regulator, receiver
IM40_05850	COG2205	protein histidine kinase activity
IM40_05855	COG3547	Transposase (IS116 IS110 IS902 family)
IM40_05895	COG3104	oligopeptide transport
IM40_05905	COG0583	DNA-binding transcription factor activity
IM40_05950	COG2204	response regulator
IM40_05955	COG0569	domain protein
IM40_05965	COG0784	Response regulator, receiver
IM40_06005	COG0235	Class ii aldolase
IM40_06135	COG0741	lytic transglycosylase activity
IM40_06140	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
IM40_06145	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
IM40_06160	COG2823	Periplasmic or secreted lipoprotein
IM40_06175	COG0752	glycyl-tRNA synthetase alpha subunit
IM40_06210	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
IM40_06215	COG0085	RNA polymerase activity
IM40_06220	COG0222	ribosome binding
IM40_06225	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
IM40_06230	COG0081	regulation of translation
IM40_06235	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
IM40_06275	COG1040	competence protein
IM40_06280	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
IM40_06285	COG0776	regulation of translation
IM40_06310	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
IM40_06315	COG0745	RESPONSE REGULATOR receiver
IM40_06325	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
IM40_06380	COG0544	peptidyl-prolyl cis-trans isomerase activity
IM40_06400	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
IM40_06490	COG0583	DNA-binding transcription factor activity
IM40_06510	COG3411	Ferredoxin
IM40_06525	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
IM40_06530	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
IM40_06530	COG0758	DNA mediated transformation
IM40_06540	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
IM40_06560	COG1999	signal sequence binding
IM40_06620	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
IM40_06655	COG0469	pyruvate kinase activity
IM40_06660	COG0697	spore germination
IM40_06670	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
IM40_06680	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
IM40_06715	COG0632	four-way junction helicase activity
IM40_06725	COG0217	transcriptional regulatory protein
IM40_06770	COG5425	PFAM Usg family protein
IM40_06785	COG1290	Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis
IM40_06810	COG0583	DNA-binding transcription factor activity
IM40_06825	COG5599	Phosphatase
IM40_06835	COG5599	Phosphatase
IM40_06875	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
IM40_06890	COG2086	electron transfer activity
IM40_06935	COG0439	Biotin carboxylase
IM40_06940	COG0511	ligase activity, forming carbon-carbon bonds
IM40_06945	COG1074	ATP-dependent DNA helicase activity
IM40_06950	COG2887	Belongs to the helicase family. UvrD subfamily
IM40_06955	COG0802	atpase or kinase
IM40_06965	COG0180	Tryptophanyl-tRNA synthetase
IM40_06980	COG0728	peptidoglycan biosynthetic process
IM40_07020	COG0697	spore germination
IM40_07055	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
IM40_07060	COG0328	RNA-DNA hybrid ribonuclease activity
IM40_07085	COG0126	phosphoglycerate kinase activity
IM40_07100	COG0803	Belongs to the bacterial solute-binding protein 9 family
IM40_07105	COG1108	ABC-type Mn2 Zn2 transport systems permease components
IM40_07120	COG2884	Cell division ATP-binding protein ftsE
IM40_07155	COG1881	PFAM PEBP family protein
IM40_07165	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
IM40_07170	COG0527	aspartate kinase activity
IM40_07190	COG0689	Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates
IM40_07210	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
IM40_07215	COG0508	dehydrogenase complex catalyzes the overall conversion of
IM40_07220	COG0567	Dehydrogenase, E1 component
IM40_07230	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
IM40_07240	COG0039	L-malate dehydrogenase activity
IM40_07245	COG0400	carboxylic ester hydrolase activity
IM40_07260	COG0838	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
IM40_07265	COG0377	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
IM40_07280	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
IM40_07290	COG1034	ATP synthesis coupled electron transport
IM40_07295	COG1005	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient. This subunit may bind ubiquinone
IM40_07300	COG1143	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
IM40_07305	COG0477	Major facilitator Superfamily
IM40_07385	COG1253	flavin adenine dinucleotide binding
IM40_07410	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
IM40_07425	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
IM40_07440	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
IM40_07450	COG1132	(ABC) transporter
IM40_07470	COG0018	arginyl-trna synthetase
IM40_07510	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
IM40_07520	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
IM40_07530	COG0686	Belongs to the AlaDH PNT family
IM40_07565	COG0524	Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway
IM40_07575	COG0484	heat shock protein binding
IM40_07585	COG4536	flavin adenine dinucleotide binding
IM40_07600	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
IM40_07640	COG1994	Peptidase M50
IM40_07650	COG0316	Belongs to the HesB IscA family
IM40_07655	COG0708	Exodeoxyribonuclease III
IM40_07660	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
IM40_07675	COG0697	spore germination
IM40_07690	COG1028	Short-chain dehydrogenase reductase Sdr
IM40_07695	COG0750	zinc metalloprotease
IM40_07710	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
IM40_07720	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
IM40_07725	COG3494	Protein of unknown function (DUF1009)
IM40_07730	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
IM40_07765	COG0492	ferredoxin-NADP+ reductase activity
IM40_07790	COG0772	Belongs to the SEDS family
IM40_07815	COG0351	phosphomethylpyrimidine kinase
IM40_07815	COG0352	thiamine-phosphate diphosphorylase activity
IM40_07815	COG0819	Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway
IM40_08125	COG3177	Filamentation induced by cAMP protein fic
IM40_08155	COG2135	peptidase activity
IM40_08185	COG0583	DNA-binding transcription factor activity
IM40_08215	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
IM40_08285	COG4644	lycopene metabolic process
IM40_08345	COG3547	Transposase (IS116 IS110 IS902 family)
IM40_08395	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
IM40_08405	COG1028	Short-chain dehydrogenase reductase Sdr
IM40_08460	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
IM40_08485	COG2135	peptidase activity
IM40_08595	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
IM40_08610	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
IM40_08615	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
IM40_08630	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
IM40_08640	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
IM40_08650	COG2814	Major facilitator Superfamily
IM40_08670	COG1663	tetraacyldisaccharide 4'-kinase activity
IM40_08675	COG1519	Transferase
IM40_08685	COG1132	(ABC) transporter
IM40_08720	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
IM40_08725	COG1381	Involved in DNA repair and RecF pathway recombination
IM40_08730	COG0583	DNA-binding transcription factor activity
IM40_08735	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
IM40_08815	COG0531	amino acid
IM40_08875	COG3501	Rhs element vgr protein
IM40_08880	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
IM40_08885	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
IM40_08895	COG0483	inositol monophosphate 1-phosphatase activity
IM40_08900	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
IM40_08950	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
IM40_08970	COG0495	leucyl-tRNA aminoacylation
IM40_08980	COG0156	8-amino-7-oxononanoate synthase activity
IM40_08985	COG2194	sulfuric ester hydrolase activity
IM40_09005	COG1475	DNA binding
IM40_09010	COG1192	Involved in chromosome partitioning
IM40_09020	COG1158	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template
IM40_09030	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
IM40_09050	COG0237	dephospho-CoA kinase activity
IM40_09055	COG0847	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease
IM40_09065	COG4395	Tim44
IM40_09090	COG0583	DNA-binding transcription factor activity
IM40_09100	COG1220	this subunit has chaperone activity. The binding of ATP and its subsequent hydrolysis by HslU are essential for unfolding of protein substrates subsequently hydrolyzed by HslV. HslU recognizes the N-terminal part of its protein substrates and unfolds these before they are guided to HslV for hydrolysis
IM40_09105	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
IM40_09115	COG0543	2 iron, 2 sulfur cluster binding
IM40_09115	COG0493	'glutamate synthase
IM40_09120	COG3023	N-Acetylmuramoyl-L-alanine amidase
IM40_09155	COG0792	nuclease activity
IM40_09165	COG0189	ligase activity
IM40_09175	COG0606	chelatase, subunit chli
IM40_09195	COG1053	succinate dehydrogenase
IM40_09200	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
IM40_09210	COG0268	Binds directly to 16S ribosomal RNA
IM40_09265	COG2948	multi-organism process
IM40_09275	COG0630	type IV secretory pathway, VirB11 components, and related ATPases involved in Archaeal flagella biosynthesis
IM40_09345	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
IM40_09365	COG4804	nuclease activity
IM40_09375	COG4974	Belongs to the 'phage' integrase family
IM40_09455	COG2963	transposase activity
IM40_09520	COG2801	Transposase and inactivated derivatives
IM40_09620	COG4804	nuclease activity
IM40_09690	COG5433	transposase activity
IM40_09755	COG3344	reverse transcriptase
IM40_09765	COG3547	Transposase (IS116 IS110 IS902 family)
IM40_09890	COG0583	DNA-binding transcription factor activity
IM40_09990	COG1192	Involved in chromosome partitioning
IM40_10025	COG0583	DNA-binding transcription factor activity
IM40_10085	COG2948	multi-organism process
IM40_10175	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
IM40_10200	COG2197	response regulator
IM40_10285	COG2963	transposase activity
IM40_10295	COG3316	Transposase and inactivated derivatives
IM40_10305	COG3547	Transposase (IS116 IS110 IS902 family)
IM40_10310	COG3316	Transposase and inactivated derivatives
IM40_10360	COG3547	Transposase (IS116 IS110 IS902 family)
IM40_10435	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
IM40_10435	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
IM40_10465	COG3316	Transposase and inactivated derivatives
IM40_10495	COG3316	Transposase and inactivated derivatives
IM40_10715	COG2197	response regulator
IM40_10720	COG3316	Transposase and inactivated derivatives
IM40_10730	COG3547	Transposase (IS116 IS110 IS902 family)
IM40_10845	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
IM40_10850	COG3316	Transposase and inactivated derivatives
IM40_10870	COG3550	peptidyl-serine autophosphorylation
IM40_10995	COG3316	Transposase and inactivated derivatives
IM40_11070	COG3316	Transposase and inactivated derivatives
IM40_11095	COG2155	Conserved Protein
IM40_11140	COG4251	negative regulation of phosphorylation
IM40_11180	COG3344	reverse transcriptase
IM40_11195	COG0630	type IV secretory pathway, VirB11 components, and related ATPases involved in Archaeal flagella biosynthesis
IM40_11205	COG2948	multi-organism process
IM40_11310	COG1192	Involved in chromosome partitioning
IM40_11375	COG3744	PilT protein domain protein
IM40_11430	COG3316	Transposase and inactivated derivatives
IM40_11450	COG5464	transposase or invertase
IM40_11490	COG3505	Type IV secretory pathway VirD4