locus-tag	class	description
BER92_00025	COG0187	DNA topoisomerase II activity
BER92_00035	COG0501	Belongs to the peptidase M48B family
BER92_00075	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
BER92_00115	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
BER92_00120	COG0793	Belongs to the peptidase S41A family
BER92_00125	COG4942	peptidase
BER92_00130	COG2234	aminopeptidase activity
BER92_00145	COG0277	FAD linked oxidase domain protein
BER92_00165	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_00175	COG0616	signal peptide processing
BER92_00180	COG0534	Mate efflux family protein
BER92_00195	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
BER92_00210	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
BER92_00215	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
BER92_00220	COG2201	protein-glutamate methylesterase activity
BER92_00225	COG2177	Part of the ABC transporter FtsEX involved in
BER92_00230	COG2884	Cell division ATP-binding protein ftsE
BER92_00235	COG0513	Belongs to the DEAD box helicase family
BER92_00240	COG3118	belongs to the thioredoxin family
BER92_00245	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
BER92_00275	COG1652	LysM domain
BER92_00290	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
BER92_00295	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
BER92_00315	COG5383	Protein conserved in bacteria
BER92_00330	COG3131	Involved in the biosynthesis of osmoregulated periplasmic glucans (OPGs)
BER92_00335	COG1435	thymidine kinase activity
BER92_00340	COG0210	DNA helicase
BER92_00370	COG3132	Protein of unknown function, DUF480
BER92_00400	COG2937	Belongs to the GPAT DAPAT family
BER92_00460	COG2963	transposase activity
BER92_00515	COG0513	Belongs to the DEAD box helicase family
BER92_00520	COG0508	dehydrogenase complex catalyzes the overall conversion of
BER92_00535	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
BER92_00540	COG3483	tryptophan 2,3-dioxygenase activity
BER92_00545	COG3104	oligopeptide transport
BER92_00570	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
BER92_00595	COG1893	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid
BER92_00605	COG0842	Transport permease protein
BER92_00610	COG1131	(ABC) transporter
BER92_00615	COG0543	2 iron, 2 sulfur cluster binding
BER92_00615	COG0633	Ferredoxin
BER92_00630	COG4555	ABC transporter
BER92_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
BER92_00655	COG0625	glutathione transferase activity
BER92_00750	COG3501	Rhs element vgr protein
BER92_00770	COG4695	Portal protein
BER92_00925	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
BER92_00940	COG1247	-acetyltransferase
BER92_00945	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
BER92_00975	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
BER92_00980	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
BER92_00980	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
BER92_00985	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
BER92_00990	COG0242	peptide deformylase activity
BER92_00995	COG1652	LysM domain
BER92_01000	COG0758	DNA mediated transformation
BER92_01020	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
BER92_01020	COG1754	DNA topoisomerase type I activity
BER92_01025	COG0009	L-threonylcarbamoyladenylate synthase
BER92_01050	COG4771	TonB-dependent receptor
BER92_01055	COG0729	surface antigen
BER92_01060	COG2911	Protein conserved in bacteria
BER92_01075	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
BER92_01080	COG3265	gluconokinase activity
BER92_01085	COG2211	Major facilitator Superfamily
BER92_01095	COG2205	protein histidine kinase activity
BER92_01100	COG1971	Probably functions as a manganese efflux pump
BER92_01105	COG1414	Transcriptional regulator
BER92_01110	COG0738	Major facilitator superfamily
BER92_01115	COG3254	rhamnose metabolic process
BER92_01120	COG4948	Mandelate Racemase Muconate Lactonizing
BER92_01130	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_01160	COG3162	membrane
BER92_01165	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
BER92_01170	COG0708	Exodeoxyribonuclease III
BER92_01185	COG2091	lysine biosynthetic process via aminoadipic acid
BER92_01210	COG0227	Belongs to the bacterial ribosomal protein bL28 family
BER92_01215	COG0267	Belongs to the bacterial ribosomal protein bL33 family
BER92_01220	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
BER92_01230	COG0210	DNA helicase
BER92_01260	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
BER92_01260	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
BER92_01265	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
BER92_01290	COG2963	transposase activity
BER92_01335	COG0180	Tryptophanyl-tRNA synthetase
BER92_01375	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
BER92_01400	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
BER92_01405	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
BER92_01430	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
BER92_01450	COG0642	Histidine kinase
BER92_01455	COG0745	RESPONSE REGULATOR receiver
BER92_01490	COG1090	epimerase
BER92_01545	COG1690	Belongs to the RtcB family
BER92_01565	COG4943	cyclic-guanylate-specific phosphodiesterase activity
BER92_01580	COG0606	chelatase, subunit chli
BER92_01595	COG3525	Glycosyl hydrolase, family 20, catalytic domain
BER92_01595	COG3291	Pkd domain containing protein
BER92_01615	COG0421	Catalyzes the irreversible transfer of a propylamine group from the amino donor S-adenosylmethioninamine (decarboxy- AdoMet) to putrescine (1,4-diaminobutane) to yield spermidine
BER92_01620	COG1166	arginine decarboxylase activity
BER92_01625	COG3039	Transposase
BER92_01685	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
BER92_01700	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
BER92_01730	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_01740	COG0463	Glycosyl transferase, family 2
BER92_01750	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
BER92_01755	COG3100	YcgL domain-containing protein
BER92_01770	COG3387	PFAM Glycoside hydrolase 15-related
BER92_01775	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
BER92_01780	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
BER92_01780	COG0475	glutathione-regulated potassium exporter activity
BER92_01785	COG3338	carbonate dehydratase activity
BER92_01790	COG2239	Acts as a magnesium transporter
BER92_01795	COG0045	succinate-CoA ligase (ADP-forming) activity
BER92_01795	COG1042	CoA-binding domain protein
BER92_01795	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
BER92_01805	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
BER92_01810	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
BER92_01830	COG1272	protein, Hemolysin III
BER92_01835	COG1111	helicase
BER92_01835	COG1205	dead DEAH box helicase
BER92_01875	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
BER92_01935	COG2963	transposase activity
BER92_01940	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
BER92_01960	COG1304	FMN binding
BER92_02010	COG2816	NAD+ diphosphatase activity
BER92_02050	COG0183	Belongs to the thiolase family
BER92_02080	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
BER92_02090	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
BER92_02100	COG0028	Belongs to the TPP enzyme family
BER92_02110	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
BER92_02120	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
BER92_02130	COG2963	transposase activity
BER92_02135	COG2801	Transposase and inactivated derivatives
BER92_02150	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
BER92_02160	COG3200	phospho-2-dehydro-3-deoxyheptonate aldolase
BER92_02185	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
BER92_02215	COG3039	Transposase
BER92_02225	COG0446	pyridine nucleotide-disulphide oxidoreductase
BER92_02225	COG1902	pentaerythritol trinitrate reductase activity
BER92_02230	COG0604	alcohol dehydrogenase
BER92_02260	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
BER92_02265	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
BER92_02270	COG4208	sulfate ABC transporter
BER92_02275	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
BER92_02285	COG1063	alcohol dehydrogenase
BER92_02300	COG0406	alpha-ribazole phosphatase activity
BER92_02335	COG0189	ligase activity
BER92_02345	COG0745	RESPONSE REGULATOR receiver
BER92_02380	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
BER92_02385	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
BER92_02390	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
BER92_02445	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
BER92_02510	COG1113	amino acid transport
BER92_02520	COG0598	Magnesium transport protein CorA
BER92_02580	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
BER92_02580	COG5297	Belongs to the glycosyl hydrolase family 6
BER92_02585	COG0659	secondary active sulfate transmembrane transporter activity
BER92_02595	COG2943	transferase activity, transferring hexosyl groups
BER92_02615	COG0181	hydroxymethylbilane synthase activity
BER92_02640	COG1505	serine-type exopeptidase activity
BER92_02670	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
BER92_02680	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
BER92_02685	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
BER92_02690	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
BER92_02715	COG2226	methyltransferase
BER92_02720	COG3300	MHYT domain
BER92_02720	COG5001	Diguanylate cyclase
BER92_02745	COG1077	Cell shape determining protein MreB Mrl
BER92_02750	COG1792	Involved in formation and maintenance of cell shape
BER92_02765	COG0772	Belongs to the SEDS family
BER92_02775	COG2951	lytic endotransglycosylase activity
BER92_02780	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
BER92_02785	COG1686	Belongs to the peptidase S11 family
BER92_02805	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
BER92_02870	COG1023	phosphogluconate dehydrogenase (decarboxylating) activity
BER92_02875	COG0673	inositol 2-dehydrogenase activity
BER92_02880	COG2823	Periplasmic or secreted lipoprotein
BER92_02885	COG4251	negative regulation of phosphorylation
BER92_02890	COG0784	Response regulator, receiver
BER92_02895	COG4191	Histidine kinase
BER92_02900	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
BER92_02905	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_02930	COG2801	Transposase and inactivated derivatives
BER92_02935	COG2963	transposase activity
BER92_02960	COG1609	Transcriptional regulator
BER92_02965	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
BER92_02970	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
BER92_02985	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
BER92_02990	COG3791	Glutathione-dependent formaldehyde-activating
BER92_03020	COG3964	amidohydrolase
BER92_03065	COG2963	transposase activity
BER92_03075	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
BER92_03120	COG2931	calcium- and calmodulin-responsive adenylate cyclase activity
BER92_03150	COG2211	Major facilitator Superfamily
BER92_03160	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_03165	COG2851	Citrate transporter
BER92_03180	COG0642	Histidine kinase
BER92_03185	COG1840	ABC-type Fe3 transport system, periplasmic component
BER92_03190	COG2197	response regulator
BER92_03200	COG2963	transposase activity
BER92_03215	COG2963	transposase activity
BER92_03240	COG0280	phosphate acetyltransferase
BER92_03240	COG0281	malic enzyme
BER92_03265	COG1560	Kdo2-lipid A biosynthetic process
BER92_03270	COG1519	Transferase
BER92_03275	COG1538	Outer membrane efflux protein
BER92_03280	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
BER92_03305	COG0473	3-isopropylmalate dehydrogenase activity
BER92_03310	COG4771	TonB-dependent receptor
BER92_03320	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)
BER92_03370	COG3039	Transposase
BER92_03390	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
BER92_03425	COG0563	adenylate kinase activity
BER92_03430	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
BER92_03445	COG0671	phosphoesterase, PA-phosphatase related
BER92_03455	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_03465	COG3039	Transposase
BER92_03475	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
BER92_03480	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
BER92_03485	COG0352	thiamine-phosphate diphosphorylase activity
BER92_03490	COG1773	rubredoxin
BER92_03495	COG2912	Transglutaminase-like superfamily
BER92_03515	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
BER92_03540	COG0006	proline dipeptidase activity
BER92_03545	COG0006	proline dipeptidase activity
BER92_03560	COG0635	Involved in the biosynthesis of porphyrin-containing compound
BER92_03565	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
BER92_03570	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
BER92_03575	COG1561	YicC-like family, N-terminal region
BER92_03585	COG1758	RNA polymerase activity
BER92_03590	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
BER92_03600	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)
BER92_03615	COG0254	rRNA binding
BER92_03630	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
BER92_03660	COG3039	Transposase
BER92_03690	COG3039	Transposase
BER92_03745	COG3116	cell division
BER92_03755	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
BER92_03760	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
BER92_03765	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
BER92_03780	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
BER92_03785	COG1181	Belongs to the D-alanine--D-alanine ligase family
BER92_03790	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
BER92_03815	COG0739	heme binding
BER92_03820	COG0653	protein targeting
BER92_03830	COG0494	nUDIX hydrolase
BER92_03840	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
BER92_03850	COG0604	alcohol dehydrogenase
BER92_03850	COG3321	synthase
BER92_03850	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_03875	COG2963	transposase activity
BER92_03885	COG0237	dephospho-CoA kinase activity
BER92_03890	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
BER92_03895	COG1459	type II secretion system
BER92_03935	COG0045	succinate-CoA ligase (ADP-forming) activity
BER92_03940	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
BER92_03945	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
BER92_03945	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
BER92_03950	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
BER92_03955	COG0564	pseudouridine synthase activity
BER92_03990	COG3387	PFAM Glycoside hydrolase 15-related
BER92_03995	COG1877	trehalose-phosphatase activity
BER92_04040	COG2963	transposase activity
BER92_04055	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
BER92_04090	COG0783	Belongs to the Dps family
BER92_04095	COG1643	Atp-dependent helicase
BER92_04100	COG0535	radical SAM domain protein
BER92_04115	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
BER92_04120	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
BER92_04135	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
BER92_04145	COG1199	ATP-dependent helicase activity
BER92_04160	COG0189	ligase activity
BER92_04175	COG0835	chemotaxis
BER92_04180	COG0840	transmembrane signaling receptor activity
BER92_04215	COG3142	Participates in the control of copper homeostasis
BER92_04245	COG3501	Rhs element vgr protein
BER92_04280	COG2963	transposase activity
BER92_04285	COG2801	Transposase and inactivated derivatives
BER92_04290	COG0525	valine-tRNA ligase activity
BER92_04300	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
BER92_04310	COG0795	lipopolysaccharide-transporting ATPase activity
BER92_04325	COG4974	Belongs to the 'phage' integrase family
BER92_04330	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
BER92_04335	COG0047	phosphoribosylformylglycinamidine synthase activity
BER92_04335	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
BER92_04350	COG1404	Belongs to the peptidase S8 family
BER92_04355	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
BER92_04360	COG1459	type II secretion system
BER92_04365	COG2165	general secretion pathway protein
BER92_04370	COG4970	Tfp pilus assembly protein FimT
BER92_04375	COG2165	general secretion pathway protein
BER92_04380	COG4795	General secretion pathway protein
BER92_04385	COG3156	type II secretion system protein K
BER92_04390	COG3166	PFAM Fimbrial assembly family protein
BER92_04405	COG1450	Type ii and iii secretion system protein
BER92_04415	COG2188	Transcriptional regulator
BER92_04445	COG0457	Tetratricopeptide repeat
BER92_04465	COG0242	peptide deformylase activity
BER92_04470	COG0488	(ABC) transporter
BER92_04480	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
BER92_04495	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
BER92_04495	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
BER92_04510	COG3039	Transposase
BER92_04560	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
BER92_04580	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
BER92_04590	COG4106	trans-aconitate 2-methyltransferase activity
BER92_04595	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
BER92_04610	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
BER92_04620	COG0642	Histidine kinase
BER92_04635	COG4181	ATPase activity
BER92_04680	COG0667	Aldo Keto reductase
BER92_04685	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
BER92_04705	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
BER92_04725	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
BER92_04730	COG2967	ApaG domain
BER92_04735	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
BER92_04740	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)
BER92_04755	COG0123	including yeast histone deacetylase and acetoin utilization protein
BER92_04760	COG2096	Adenosyltransferase
BER92_04770	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
BER92_04775	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
BER92_04790	COG0583	DNA-binding transcription factor activity
BER92_04800	COG1024	Enoyl-CoA hydratase
BER92_04810	COG3386	PFAM SMP-30 Gluconolaconase
BER92_04815	COG0673	inositol 2-dehydrogenase activity
BER92_04835	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)
BER92_04855	COG2197	response regulator
BER92_04860	COG0225	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
BER92_04865	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
BER92_04870	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
BER92_04875	COG0583	DNA-binding transcription factor activity
BER92_04880	COG3634	alkyl hydroperoxide reductase activity
BER92_04890	COG2890	protein-(glutamine-N5) methyltransferase activity
BER92_04915	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
BER92_04915	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
BER92_04955	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
BER92_04970	COG1404	Belongs to the peptidase S8 family
BER92_04995	COG1295	ribonuclease BN
BER92_05000	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
BER92_05015	COG0521	Mo-molybdopterin cofactor biosynthetic process
BER92_05040	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
BER92_05045	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
BER92_05055	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)
BER92_05060	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
BER92_05065	COG0193	aminoacyl-tRNA hydrolase activity
BER92_05070	COG0012	GTP binding
BER92_05090	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
BER92_05100	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
BER92_05105	COG0250	Participates in transcription elongation, termination and antitermination
BER92_05115	COG0081	regulation of translation
BER92_05120	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
BER92_05125	COG0222	ribosome binding
BER92_05135	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
BER92_05140	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
BER92_05155	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
BER92_05160	COG0051	transcription antitermination factor activity, RNA binding
BER92_05180	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
BER92_05205	COG0255	Belongs to the universal ribosomal protein uL29 family
BER92_05210	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
BER92_05215	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
BER92_05220	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
BER92_05230	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
BER92_05250	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
BER92_05255	COG1841	ribosomal large subunit assembly
BER92_05260	COG0200	Binds to the 23S rRNA
BER92_05265	COG0201	protein transport
BER92_05270	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
BER92_05275	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
BER92_05280	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
BER92_05285	COG0202	RNA polymerase activity
BER92_05290	COG0203	ribosomal protein L17
BER92_05295	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
BER92_05340	COG1970	mechanosensitive ion channel activity
BER92_05355	COG0471	metal ion transport
BER92_05355	COG3273	potassium ion transport
BER92_05360	COG0220	tRNA (guanine-N7-)-methyltransferase activity
BER92_05385	COG0582	viral genome integration into host DNA
BER92_05410	COG1396	sequence-specific DNA binding
BER92_05430	COG2801	Transposase and inactivated derivatives
BER92_05435	COG2963	transposase activity
BER92_05445	COG5001	Diguanylate cyclase
BER92_05580	COG2963	transposase activity
BER92_05610	COG1309	transcriptional regulator
BER92_05615	COG0328	RNA-DNA hybrid ribonuclease activity
BER92_05615	COG0406	alpha-ribazole phosphatase activity
BER92_05620	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
BER92_05640	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_05670	COG1385	rRNA (uridine-N3-)-methyltransferase activity
BER92_05680	COG0494	nUDIX hydrolase
BER92_05685	COG1218	3'(2'),5'-bisphosphate nucleotidase
BER92_05690	COG3956	TIGRFAM MazG family protein
BER92_05695	COG0404	The glycine cleavage system catalyzes the degradation of glycine
BER92_05725	COG1960	acyl-CoA dehydrogenase activity
BER92_05735	COG1309	transcriptional regulator
BER92_05770	COG2963	transposase activity
BER92_05780	COG1281	Redox regulated molecular chaperone. Protects both thermally unfolding and oxidatively damaged proteins from irreversible aggregation. Plays an important role in the bacterial defense system toward oxidative stress
BER92_05785	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
BER92_05790	COG0463	Glycosyl transferase, family 2
BER92_05795	COG0516	GMP reductase activity
BER92_05795	COG0517	IMP dehydrogenase activity
BER92_05800	COG2982	Protein involved in outer membrane biogenesis
BER92_05805	COG1272	protein, Hemolysin III
BER92_05810	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
BER92_05825	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
BER92_05830	COG0626	cystathionine gamma-synthase activity
BER92_05835	COG0460	homoserine dehydrogenase
BER92_05835	COG0527	aspartate kinase activity
BER92_05850	COG0626	cystathionine gamma-synthase activity
BER92_05875	COG2353	YceI-like domain
BER92_05900	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
BER92_05905	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
BER92_05935	COG0336	Belongs to the RNA methyltransferase TrmD family
BER92_05945	COG0534	Mate efflux family protein
BER92_05980	COG3706	GGDEF domain
BER92_05995	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)
BER92_06000	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
BER92_06005	COG0291	Belongs to the bacterial ribosomal protein bL35 family
BER92_06015	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
BER92_06025	COG0776	regulation of translation
BER92_06070	COG0438	transferase activity, transferring glycosyl groups
BER92_06075	COG0438	transferase activity, transferring glycosyl groups
BER92_06090	COG2327	Polysaccharide pyruvyl transferase
BER92_06105	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)
BER92_06120	COG1960	acyl-CoA dehydrogenase activity
BER92_06130	COG3040	lipid binding
BER92_06190	COG0552	protein localization to endoplasmic reticulum
BER92_06200	COG3938	Belongs to the proline racemase family
BER92_06205	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
BER92_06220	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
BER92_06230	COG0006	proline dipeptidase activity
BER92_06245	COG0531	amino acid
BER92_06270	COG3039	Transposase
BER92_06290	COG4206	TonB-dependent receptor
BER92_06335	COG2963	transposase activity
BER92_06355	COG0825	malonyl-CoA metabolic process
BER92_06370	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
BER92_06375	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
BER92_06385	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
BER92_06400	COG0750	zinc metalloprotease
BER92_06405	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
BER92_06410	COG0575	Belongs to the CDS family
BER92_06415	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
BER92_06425	COG0528	UMP kinase activity
BER92_06435	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
BER92_06475	COG0024	Methionine aminopeptidase
BER92_06490	COG1393	Belongs to the ArsC family
BER92_06495	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
BER92_06500	COG0367	asparagine synthase
BER92_06510	COG4774	siderophore transport
BER92_06530	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
BER92_06550	COG1566	PFAM secretion protein HlyD family protein
BER92_06555	COG2814	Major facilitator Superfamily
BER92_06610	COG0386	Belongs to the glutathione peroxidase family
BER92_06670	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
BER92_06675	COG0084	hydrolase, TatD family'
BER92_06700	COG0367	asparagine synthase
BER92_06710	COG0305	Participates in initiation and elongation during chromosome replication
BER92_06715	COG0415	Belongs to the DNA photolyase family
BER92_06735	COG2963	transposase activity
BER92_06765	COG1960	acyl-CoA dehydrogenase activity
BER92_06770	COG1024	Enoyl-CoA hydratase
BER92_06805	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
BER92_06815	COG3039	Transposase
BER92_06825	COG2963	transposase activity
BER92_06830	COG2801	Transposase and inactivated derivatives
BER92_06850	COG4535	Mg2 and Co2 transporter CorC
BER92_06860	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
BER92_06865	COG1702	phosphate starvation-inducible protein PhoH
BER92_06875	COG0741	lytic transglycosylase activity
BER92_06880	COG0723	plastoquinol--plastocyanin reductase activity
BER92_06885	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
BER92_06890	COG2857	Cytochrome c1
BER92_06895	COG0625	glutathione transferase activity
BER92_06900	COG2969	positive regulation of protein catabolic process
BER92_06910	COG1201	RNA secondary structure unwinding
BER92_06915	COG2094	Belongs to the DNA glycosylase MPG family
BER92_06945	COG1262	PFAM Formylglycine-generating sulfatase enzyme
BER92_06960	COG0481	GTPase activity
BER92_06975	COG0571	ribonuclease III activity
BER92_07005	COG3380	Catalyzes the oxidation of the 1,2-dihydro- and 1,6- dihydro- isomeric forms of beta-NAD(P) back to beta-NAD(P) . May serve to protect primary metabolism dehydrogenases from inhibition by the 1,2-dihydro- and 1,6-dihydro-beta-NAD(P) isomers
BER92_07010	COG3046	protein related to deoxyribodipyrimidine photolyase
BER92_07015	COG1472	Belongs to the glycosyl hydrolase 3 family
BER92_07025	COG0005	The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate
BER92_07030	COG1278	Cold shock
BER92_07040	COG1201	RNA secondary structure unwinding
BER92_07045	COG1793	dna ligase
BER92_07055	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
BER92_07055	COG1793	dna ligase
BER92_07085	COG0183	Belongs to the thiolase family
BER92_07090	COG3039	Transposase
BER92_07105	COG1451	nucleotide metabolic process
BER92_07115	COG5487	UPF0391 membrane protein
BER92_07125	COG0433	COG0433 Predicted ATPase
BER92_07150	COG0135	phosphoribosylanthranilate isomerase activity
BER92_07160	COG3039	Transposase
BER92_07175	COG0133	tryptophan synthase activity
BER92_07190	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
BER92_07220	COG4221	oxidoreductase activity
BER92_07240	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
BER92_07250	COG0852	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
BER92_07255	COG0649	NAD binding
BER92_07260	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
BER92_07265	COG1894	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain
BER92_07270	COG1034	ATP synthesis coupled electron transport
BER92_07280	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
BER92_07290	COG0713	ATP synthesis coupled electron transport
BER92_07305	COG1007	ATP synthesis coupled electron transport
BER92_07315	COG0779	Required for maturation of 30S ribosomal subunits
BER92_07320	COG0195	Participates in both transcription termination and antitermination
BER92_07330	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
BER92_07335	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
BER92_07340	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
BER92_07390	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
BER92_07400	COG2095	MarC family integral membrane protein
BER92_07410	COG1611	Belongs to the LOG family
BER92_07420	COG3275	phosphorelay sensor kinase activity
BER92_07425	COG4969	Belongs to the N-Me-Phe pilin family
BER92_07450	COG0784	Response regulator, receiver
BER92_07450	COG2205	protein histidine kinase activity
BER92_07450	COG5002	protein histidine kinase activity
BER92_07455	COG2733	membrane
BER92_07460	COG1121	(ABC) transporter
BER92_07475	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
BER92_07480	COG0243	molybdopterin cofactor binding
BER92_07495	COG2963	transposase activity
BER92_07500	COG2801	Transposase and inactivated derivatives
BER92_07510	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
BER92_07515	COG0174	glutamine synthetase
BER92_07545	COG3842	ATPase activity
BER92_07550	COG1176	ABC-type spermidine putrescine transport system, permease component I
BER92_07555	COG1177	transmembrane transport
BER92_07560	COG1012	belongs to the aldehyde dehydrogenase family
BER92_07570	COG3920	Histidine kinase
BER92_07575	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
BER92_07580	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
BER92_07590	COG2902	Dehydrogenase
BER92_07630	COG3609	addiction module antidote protein, CC2985 family
BER92_07655	COG1271	oxidase subunit
BER92_07665	COG3039	Transposase
BER92_07670	COG2963	transposase activity
BER92_07675	COG2801	Transposase and inactivated derivatives
BER92_07680	COG2801	Transposase and inactivated derivatives
BER92_07690	COG0556	nucleotide-excision repair
BER92_07720	COG2948	multi-organism process
BER92_07740	COG3702	type iv secretory pathway
BER92_07845	COG3039	Transposase
BER92_07930	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
BER92_07940	COG2914	Belongs to the UPF0125 (RnfH) family
BER92_07945	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
BER92_07955	COG0497	DNA recombination
BER92_07960	COG1420	regulation of RNA biosynthetic process
BER92_07965	COG0576	Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ
BER92_07975	COG0484	heat shock protein binding
BER92_07980	COG2240	Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP
BER92_07985	COG1605	Chorismate mutase
BER92_07985	COG0287	Prephenate dehydrogenase
BER92_08005	COG2274	protein secretion by the type I secretion system
BER92_08020	COG1132	(ABC) transporter
BER92_08055	COG2850	peptidyl-arginine hydroxylation
BER92_08075	COG2963	transposase activity
BER92_08080	COG2801	Transposase and inactivated derivatives
BER92_08085	COG2801	Transposase and inactivated derivatives
BER92_08090	COG3039	Transposase
BER92_08115	COG1131	(ABC) transporter
BER92_08120	COG1725	Transcriptional regulator
BER92_08130	COG0386	Belongs to the glutathione peroxidase family
BER92_08160	COG1609	Transcriptional regulator
BER92_08170	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
BER92_08180	COG0646	methionine synthase
BER92_08180	COG1410	methionine synthase
BER92_08185	COG0646	methionine synthase
BER92_08185	COG1410	methionine synthase
BER92_08195	COG1960	acyl-CoA dehydrogenase activity
BER92_08210	COG0557	exoribonuclease II activity
BER92_08215	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
BER92_08230	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
BER92_08235	COG0704	Plays a role in the regulation of phosphate uptake
BER92_08240	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
BER92_08245	COG0581	inorganic phosphate transmembrane transporter activity
BER92_08250	COG0573	inorganic phosphate transmembrane transporter activity
BER92_08255	COG0226	Part of the ABC transporter complex PstSACB involved in phosphate import
BER92_08290	COG0659	secondary active sulfate transmembrane transporter activity
BER92_08295	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
BER92_08315	COG0494	nUDIX hydrolase
BER92_08370	COG3039	Transposase
BER92_08385	COG2925	Exonuclease
BER92_08390	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
BER92_08395	COG3844	kynureninase activity
BER92_08410	COG0288	reversible hydration of carbon dioxide
BER92_08435	COG0017	Asparaginyl-tRNA synthetase
BER92_08440	COG0316	Belongs to the HesB IscA family
BER92_08450	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
BER92_08470	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
BER92_08475	COG2269	With EpmB is involved in the beta-lysylation step of the post-translational modification of translation elongation factor P (EF-P). Catalyzes the ATP-dependent activation of (R)-beta-lysine produced by EpmB, forming a lysyl-adenylate, from which the beta- lysyl moiety is then transferred to the epsilon-amino group of a conserved specific lysine residue in EF-P
BER92_08490	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
BER92_08510	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
BER92_08520	COG2986	histidine ammonia-lyase
BER92_08555	COG2717	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. MsrQ provides electrons for reduction to the reductase catalytic subunit MsrP, using the quinone pool of the respiratory chain
BER92_08570	COG2890	protein-(glutamine-N5) methyltransferase activity
BER92_08580	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
BER92_08585	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
BER92_08590	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
BER92_08600	COG0840	transmembrane signaling receptor activity
BER92_08605	COG0467	Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction
BER92_08615	COG2963	transposase activity
BER92_08635	COG3088	subunit of a heme lyase
BER92_08690	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
BER92_08700	COG1253	flavin adenine dinucleotide binding
BER92_08715	COG1434	Gram-negative-bacterium-type cell wall biogenesis
BER92_08735	COG0504	CTP synthase activity
BER92_08740	COG2877	3-deoxy-8-phosphooctulonate synthase activity
BER92_08745	COG0148	phosphopyruvate hydratase activity
BER92_08755	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
BER92_08770	COG2840	Smr protein MutS2
BER92_08775	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
BER92_08780	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
BER92_08785	COG1238	metal cluster binding
BER92_08835	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
BER92_08865	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
BER92_08885	COG4133	protoheme IX ABC transporter activity
BER92_08890	COG0436	Aminotransferase
BER92_08910	COG1187	pseudouridine synthase activity
BER92_08915	COG1386	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpA that pull DNA away from mid-cell into both cell halves
BER92_08920	COG1354	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpB that pull DNA away from mid-cell into both cell halves
BER92_08925	COG2350	Protein conserved in bacteria
BER92_08955	COG1175	transmembrane transport
BER92_08960	COG0395	ABC-type sugar transport system, permease component
BER92_08990	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
BER92_08995	COG2957	Belongs to the agmatine deiminase family
BER92_09010	COG0539	negative regulation of cytoplasmic translation
BER92_09025	COG2956	Modulates cellular lipopolysaccharide (LPS) levels by regulating LpxC, which is involved in lipid A biosynthesis. May act by modulating the proteolytic activity of FtsH towards LpxC. May also coordinate assembly of proteins involved in LPS synthesis at the plasma membrane
BER92_09030	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
BER92_09050	COG2963	transposase activity
BER92_09080	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
BER92_09095	COG0582	viral genome integration into host DNA
BER92_09135	COG4691	Plasmid stability protein
BER92_09140	COG1487	ribonuclease activity
BER92_09150	COG2963	transposase activity
BER92_09160	COG2801	Transposase and inactivated derivatives
BER92_09190	COG0124	histidyl-tRNA synthetase
BER92_09200	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
BER92_09205	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
BER92_09210	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
BER92_09225	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
BER92_09230	COG0107	imidazoleglycerol-phosphate synthase activity
BER92_09235	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
BER92_09235	COG0140	phosphoribosyl-ATP diphosphatase activity
BER92_09260	COG4229	Bifunctional enzyme that catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into the intermediate 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P), which is then dephosphorylated to form the acireductone 1,2-dihydroxy-3-keto-5-methylthiopentene (DHK- MTPene)
BER92_09265	COG1791	Catalyzes 2 different reactions between oxygene and the acireductone 1,2-dihydroxy-3-keto-5-methylthiopentene (DHK-MTPene) depending upon the metal bound in the active site. Fe-containing acireductone dioxygenase (Fe-ARD) produces formate and 2-keto-4- methylthiobutyrate (KMTB), the alpha-ketoacid precursor of methionine in the methionine recycle pathway. Ni-containing acireductone dioxygenase (Ni-ARD) produces methylthiopropionate, carbon monoxide and formate, and does not lie on the methionine recycle pathway
BER92_09270	COG0235	Class ii aldolase
BER92_09275	COG0531	amino acid
BER92_09280	COG0531	amino acid
BER92_09290	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
BER92_09295	COG0277	FAD linked oxidase domain protein
BER92_09310	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
BER92_09325	COG1024	Enoyl-CoA hydratase
BER92_09360	COG0505	Belongs to the CarA family
BER92_09375	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
BER92_09380	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
BER92_09390	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
BER92_09395	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
BER92_09400	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
BER92_09415	COG2198	Histidine kinase
BER92_09415	COG0784	Response regulator, receiver
BER92_09415	COG2205	protein histidine kinase activity
BER92_09420	COG1024	Enoyl-CoA hydratase
BER92_09425	COG0318	PFAM AMP-dependent synthetase and ligase
BER92_09455	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
BER92_09465	COG2201	protein-glutamate methylesterase activity
BER92_09485	COG0835	chemotaxis
BER92_09495	COG0840	transmembrane signaling receptor activity
BER92_09505	COG0840	transmembrane signaling receptor activity
BER92_09510	COG0840	transmembrane signaling receptor activity
BER92_09520	COG0840	transmembrane signaling receptor activity
BER92_09540	COG0643	Histidine kinase
BER92_09540	COG2198	Histidine kinase
BER92_09545	COG0745	RESPONSE REGULATOR receiver
BER92_09555	COG0835	chemotaxis
BER92_09560	COG1192	Involved in chromosome partitioning
BER92_09565	COG1360	Flagellar Motor Protein
BER92_09570	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
BER92_09685	COG2154	pterin-4-alpha-carbinolamine dehydratase
BER92_09695	COG2963	transposase activity
BER92_09720	COG0564	pseudouridine synthase activity
BER92_09725	COG1530	ribonuclease E activity
BER92_09760	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
BER92_09770	COG3039	Transposase
BER92_09780	COG2963	transposase activity
BER92_09785	COG2801	Transposase and inactivated derivatives
BER92_09790	COG2801	Transposase and inactivated derivatives
BER92_09820	COG3501	Rhs element vgr protein
BER92_09885	COG3501	Rhs element vgr protein
BER92_09910	COG3501	Rhs element vgr protein
BER92_09950	COG3501	Rhs element vgr protein
BER92_09955	COG2963	transposase activity
BER92_09995	COG3685	Protein conserved in bacteria
BER92_10010	COG3039	Transposase
BER92_10020	COG1648	precorrin-2 dehydrogenase activity
BER92_10020	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
BER92_10030	COG0746	molybdenum cofactor guanylyltransferase activity
BER92_10055	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
BER92_10060	COG0303	'Molybdopterin
BER92_10065	COG1160	GTP binding
BER92_10070	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
BER92_10090	COG0820	rRNA (adenine-C2-)-methyltransferase activity
BER92_10095	COG0105	UTP biosynthetic process
BER92_10105	COG1250	3-hydroxyacyl-CoA dehydrogenase
BER92_10105	COG1024	Enoyl-CoA hydratase
BER92_10110	COG0183	Belongs to the thiolase family
BER92_10115	COG0038	chloride channel
BER92_10125	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
BER92_10140	COG1674	ftsk spoiiie
BER92_10145	COG0492	ferredoxin-NADP+ reductase activity
BER92_10155	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
BER92_10160	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
BER92_10165	COG0542	response to heat
BER92_10170	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
BER92_10180	COG0482	sulfurtransferase activity
BER92_10185	COG2915	High frequency lysogenization protein hflD homolog
BER92_10210	COG4585	Histidine kinase
BER92_10220	COG5002	protein histidine kinase activity
BER92_10240	COG0784	Response regulator, receiver
BER92_10240	COG0835	chemotaxis
BER92_10245	COG1815	bacterial-type flagellum-dependent cell motility
BER92_10250	COG1558	bacterial-type flagellum-dependent cell motility
BER92_10255	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
BER92_10260	COG1749	Flagellar hook protein flgE
BER92_10270	COG4786	Flagellar basal body rod
BER92_10280	COG1706	bacterial-type flagellum-dependent cell motility
BER92_10295	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
BER92_10305	COG1345	Required for morphogenesis and for the elongation of the flagellar filament by facilitating polymerization of the flagellin monomers at the tip of growing filament. Forms a capping structure, which prevents flagellin subunits (transported through the central channel of the flagellum) from leaking out without polymerization at the distal end
BER92_10325	COG2197	response regulator
BER92_10335	COG2201	protein-glutamate methylesterase activity
BER92_10340	COG2204	response regulator
BER92_10360	COG1677	Flagellar hook-basal body complex protein FliE
BER92_10410	COG3190	flagellar
BER92_10420	COG1987	bacterial-type flagellum assembly
BER92_10425	COG1684	flagellar biosynthetic protein fliR
BER92_10435	COG3300	MHYT domain
BER92_10435	COG5001	Diguanylate cyclase
BER92_10440	COG5001	Diguanylate cyclase
BER92_10440	COG3300	MHYT domain
BER92_10450	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
BER92_10460	COG0455	bacterial-type flagellum organization
BER92_10480	COG2198	Histidine kinase
BER92_10480	COG0643	Histidine kinase
BER92_10560	COG2963	transposase activity
BER92_10620	COG2963	transposase activity
BER92_10630	COG3039	Transposase
BER92_10660	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
BER92_10665	COG2801	Transposase and inactivated derivatives
BER92_10670	COG2963	transposase activity
BER92_10675	COG1012	belongs to the aldehyde dehydrogenase family
BER92_10690	COG0167	dihydroorotate dehydrogenase activity
BER92_10695	COG0812	UDP-N-acetylmuramate dehydrogenase activity
BER92_10705	COG0671	phosphoesterase, PA-phosphatase related
BER92_10710	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
BER92_10730	COG2203	Gaf domain
BER92_10730	COG5001	Diguanylate cyclase
BER92_10730	COG3706	GGDEF domain
BER92_10730	COG4251	negative regulation of phosphorylation
BER92_10750	COG3039	Transposase
BER92_10820	COG0166	Belongs to the GPI family
BER92_10825	COG0853	Catalyzes the pyruvoyl-dependent decarboxylation of aspartate to produce beta-alanine
BER92_10830	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
BER92_10835	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
BER92_10860	COG0477	Major facilitator Superfamily
BER92_10870	COG1070	Carbohydrate kinase
BER92_10880	COG1501	Belongs to the glycosyl hydrolase 31 family
BER92_10930	COG0800	Aldolase
BER92_10945	COG3734	2-keto-3-deoxy-galactonokinase
BER92_10950	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
BER92_10960	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
BER92_10975	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
BER92_10980	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
BER92_10990	COG0351	phosphomethylpyrimidine kinase
BER92_10990	COG0352	thiamine-phosphate diphosphorylase activity
BER92_11005	COG0583	DNA-binding transcription factor activity
BER92_11010	COG1741	Belongs to the pirin family
BER92_11030	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
BER92_11035	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
BER92_11040	COG2137	regulation of response to DNA damage stimulus
BER92_11045	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
BER92_11050	COG1974	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair
BER92_11105	COG2963	transposase activity
BER92_11110	COG2801	Transposase and inactivated derivatives
BER92_11150	COG4771	TonB-dependent receptor
BER92_11155	COG1546	Belongs to the CinA family
BER92_11165	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
BER92_11170	COG1923	regulation of RNA biosynthetic process
BER92_11175	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)
BER92_11180	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
BER92_11185	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
BER92_11190	COG0293	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit
BER92_11195	COG1534	Rna-binding protein
BER92_11200	COG3737	Protein of unknown function (DUF498/DUF598)
BER92_11220	COG2963	transposase activity
BER92_11305	COG3501	Rhs element vgr protein
BER92_11310	COG1262	PFAM Formylglycine-generating sulfatase enzyme
BER92_11320	COG3501	Rhs element vgr protein
BER92_11420	COG3501	Rhs element vgr protein
BER92_11435	COG3039	Transposase
BER92_11475	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
BER92_11495	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
BER92_11500	COG1663	tetraacyldisaccharide 4'-kinase activity
BER92_11505	COG1132	(ABC) transporter
BER92_11510	COG0848	biopolymer transport protein
BER92_11515	COG0811	peptide transport
BER92_11530	COG1136	(ABC) transporter
BER92_11535	COG4591	ABC-type transport system involved in lipoprotein release permease component
BER92_11545	COG2938	An FAD assembly protein, which accelerates covalent attachment of the cofactor into other proteins. Plays an essential role in the assembly of succinate dehydrogenase (SDH, respiratory complex II), an enzyme complex that is a component of both the tricarboxylic acid cycle and the electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol. Required for flavinylation (covalent attachment of FAD) of the flavoprotein subunit SdhA of SDH
BER92_11550	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
BER92_11565	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
BER92_11585	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
BER92_11590	COG0837	glucose binding
BER92_11600	COG0129	dihydroxy-acid dehydratase activity
BER92_11605	COG0800	Aldolase
BER92_11660	COG2198	Histidine kinase
BER92_11660	COG0784	Response regulator, receiver
BER92_11660	COG2205	protein histidine kinase activity
BER92_11665	COG2183	response to ionizing radiation
BER92_11690	COG3243	poly(R)-hydroxyalkanoic acid synthase
BER92_11700	COG1183	phosphatidylcholine synthase activity
BER92_11725	COG0668	transmembrane transport
BER92_11735	COG0590	tRNA wobble adenosine to inosine editing
BER92_11740	COG1321	iron dependent repressor
BER92_11745	COG1914	H( )-stimulated, divalent metal cation uptake system
BER92_11795	COG2963	transposase activity
BER92_11815	COG2801	Transposase and inactivated derivatives
BER92_11820	COG2963	transposase activity
BER92_11865	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
BER92_11875	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
BER92_11885	COG0137	argininosuccinate synthase activity
BER92_11890	COG0078	Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline
BER92_11905	COG2166	iron-sulfur cluster assembly
BER92_11915	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
BER92_11920	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
BER92_11930	COG3039	Transposase
BER92_11975	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
BER92_11980	COG0402	S-adenosylhomocysteine deaminase activity
BER92_11995	COG1509	lysine 2,3-aminomutase activity
BER92_12005	COG0483	inositol monophosphate 1-phosphatase activity
BER92_12030	COG0513	Belongs to the DEAD box helicase family
BER92_12035	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
BER92_12040	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
BER92_12050	COG0625	glutathione transferase activity
BER92_12065	COG4681	YaeQ
BER92_12070	COG2081	HI0933 family
BER92_12080	COG0501	Belongs to the peptidase M48B family
BER92_12085	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)
BER92_12090	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_12110	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
BER92_12115	COG0860	N-Acetylmuramoyl-L-alanine amidase
BER92_12125	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
BER92_12125	COG0062	Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration
BER92_12130	COG1600	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
BER92_12155	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
BER92_12175	COG2040	homocysteine
BER92_12180	COG0833	amino acid
BER92_12190	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
BER92_12190	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
BER92_12200	COG2878	Part of a membrane complex involved in electron transport
BER92_12215	COG1595	DNA-templated transcription, initiation
BER92_12240	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
BER92_12255	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
BER92_12260	COG0251	oxidation-reduction process
BER92_12270	COG0392	lysyltransferase activity
BER92_12270	COG2898	Catalyzes the transfer of a lysyl group from L-lysyl- tRNA(Lys) to membrane-bound phosphatidylglycerol (PG), which produces lysylphosphatidylglycerol (LPG), a major component of the bacterial membrane with a positive net charge. LPG synthesis contributes to bacterial virulence as it is involved in the resistance mechanism against cationic antimicrobial peptides (CAMP) produces by the host's immune system (defensins, cathelicidins) and by the competing microorganisms
BER92_12305	COG2814	Major facilitator Superfamily
BER92_12310	COG1902	pentaerythritol trinitrate reductase activity
BER92_12315	COG2824	Alkylphosphonate utilization operon protein PhnA
BER92_12350	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
BER92_12390	COG0717	Belongs to the dCTP deaminase family
BER92_12395	COG0489	protein tyrosine kinase activity
BER92_12410	COG3590	peptidase
BER92_12435	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
BER92_12440	COG2311	Membrane
BER92_12445	COG1047	Peptidyl-prolyl cis-trans
BER92_12450	COG0791	NLP P60 protein
BER92_12455	COG0791	NLP P60 protein
BER92_12465	COG2963	transposase activity
BER92_12470	COG2801	Transposase and inactivated derivatives
BER92_12480	COG3039	Transposase
BER92_12505	COG0583	DNA-binding transcription factor activity
BER92_12510	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)
BER92_12525	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
BER92_12530	COG0077	Prephenate dehydratase
BER92_12530	COG1605	Chorismate mutase
BER92_12535	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
BER92_12540	COG2041	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. The catalytic subunit MsrP is non-stereospecific, being able to reduce both (R-) and (S-) diastereoisomers of methionine sulfoxide
BER92_12545	COG1609	Transcriptional regulator
BER92_12550	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
BER92_12550	COG1080	General (non sugar-specific) component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (sugar PTS). This major carbohydrate active-transport system catalyzes the phosphorylation of incoming sugar substrates concomitantly with their translocation across the cell membrane. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr)
BER92_12555	COG1105	Belongs to the carbohydrate kinase PfkB family
BER92_12560	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
BER92_12560	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
BER92_12575	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
BER92_12580	COG1862	Preprotein translocase
BER92_12585	COG0343	queuine tRNA-ribosyltransferase activity
BER92_12590	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
BER92_12630	COG3291	Pkd domain containing protein
BER92_12640	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
BER92_12650	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
BER92_12655	COG0742	ribosomal rna small subunit methyltransferase
BER92_12660	COG0326	Molecular chaperone. Has ATPase activity
BER92_12685	COG3039	Transposase
BER92_12700	COG1301	dicarboxylic acid transport
BER92_12705	COG1785	Belongs to the alkaline phosphatase family
BER92_12710	COG0037	tRNA processing
BER92_12715	COG1722	exodeoxyribonuclease VII activity
BER92_12720	COG0142	geranyltranstransferase activity
BER92_12735	COG0312	modulator of DNA gyrase
BER92_12740	COG3028	Belongs to the UPF0307 family
BER92_12745	COG0312	modulator of DNA gyrase
BER92_12760	COG1530	ribonuclease E activity
BER92_12765	COG0424	maF-like protein
BER92_12770	COG2968	Membrane
BER92_12780	COG2963	transposase activity
BER92_12805	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
BER92_12820	COG0495	leucyl-tRNA aminoacylation
BER92_12830	COG3118	belongs to the thioredoxin family
BER92_12910	COG1377	Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
BER92_12965	COG5297	Belongs to the glycosyl hydrolase family 6
BER92_12990	COG2155	Conserved Protein
BER92_13025	COG1132	(ABC) transporter
BER92_13035	COG0475	glutathione-regulated potassium exporter activity
BER92_13060	COG1187	pseudouridine synthase activity
BER92_13070	COG5002	protein histidine kinase activity
BER92_13070	COG5001	Diguanylate cyclase
BER92_13145	COG3383	formate dehydrogenase (NAD+) activity
BER92_13155	COG1404	Belongs to the peptidase S8 family
BER92_13180	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
BER92_13190	COG0735	belongs to the Fur family
BER92_13195	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)
BER92_13225	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
BER92_13235	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
BER92_13240	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
BER92_13245	COG0376	Bifunctional enzyme with both catalase and broad- spectrum peroxidase activity
BER92_13260	COG2963	transposase activity
BER92_13280	COG0588	phosphoglycerate mutase activity
BER92_13310	COG1966	Carbon starvation protein
BER92_13315	COG2879	small protein
BER92_13320	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
BER92_13345	COG1529	Aldehyde oxidase and xanthine dehydrogenase
BER92_13345	COG1529	Aldehyde oxidase and xanthine dehydrogenase
BER92_13350	COG3706	GGDEF domain
BER92_13350	COG4251	negative regulation of phosphorylation
BER92_13350	COG5001	Diguanylate cyclase
BER92_13350	COG2203	Gaf domain
BER92_13355	COG0629	single-stranded DNA binding
BER92_13365	COG0142	geranyltranstransferase activity
BER92_13390	COG0527	aspartate kinase activity
BER92_13400	COG0384	phenazine biosynthesis protein PhzF
BER92_13410	COG1764	response to oxidative stress
BER92_13420	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
BER92_13425	COG1678	Uncharacterized ACR, COG1678
BER92_13455	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
BER92_13490	COG1959	2 iron, 2 sulfur cluster binding
BER92_13495	COG0719	Fe-S assembly protein
BER92_13500	COG0396	ATPase activity
BER92_13505	COG0719	Fe-S assembly protein
BER92_13510	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
BER92_13525	COG4774	siderophore transport
BER92_13530	COG3128	pkhd-type hydroxylase
BER92_13540	COG2963	transposase activity
BER92_13560	COG1555	photosystem II stabilization
BER92_13565	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
BER92_13575	COG3178	'Phosphotransferase
BER92_13580	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
BER92_13595	COG0628	permease
BER92_13610	COG0299	Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate
BER92_13635	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
BER92_13640	COG0271	Belongs to the BolA IbaG family
BER92_13650	COG1778	Involved in the biosynthesis of lipopolysaccharides (LPSs). Catalyzes the hydrolysis of 3-deoxy-D-manno-octulosonate 8-phosphate (KDO 8-P) to 3-deoxy-D-manno-octulosonate (KDO) and inorganic phosphate
BER92_13660	COG1934	Involved in the assembly of lipopolysaccharide (LPS). Required for the translocation of LPS from the inner membrane to the outer membrane. May form a bridge between the inner membrane and the outer membrane, via interactions with LptC and LptD, thereby facilitating LPS transfer across the periplasm
BER92_13665	COG1137	ATPase activity
BER92_13680	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
BER92_13700	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
BER92_13705	COG1080	General (non sugar-specific) component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (sugar PTS). This major carbohydrate active-transport system catalyzes the phosphorylation of incoming sugar substrates concomitantly with their translocation across the cell membrane. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr)
BER92_13710	COG2239	Acts as a magnesium transporter
BER92_13715	COG2963	transposase activity
BER92_13745	COG0837	glucose binding
BER92_13760	COG1388	LysM domain
BER92_13760	COG3858	chitin binding
BER92_13765	COG3525	Glycosyl hydrolase, family 20, catalytic domain
BER92_13775	COG1472	Belongs to the glycosyl hydrolase 3 family
BER92_13785	COG2963	transposase activity
BER92_13805	COG3039	Transposase
BER92_13815	COG2801	Transposase and inactivated derivatives
BER92_13820	COG2963	transposase activity
BER92_13840	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
BER92_13850	COG0330	HflC and HflK could
BER92_13855	COG0330	HflC and HflK could
BER92_13875	COG0678	peroxiredoxin activity
BER92_13945	COG3829	transcription factor binding
BER92_13960	COG3039	Transposase
BER92_13985	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
BER92_13990	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
BER92_14000	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
BER92_14005	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_14010	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
BER92_14015	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
BER92_14020	COG0333	Belongs to the bacterial ribosomal protein bL32 family
BER92_14025	COG1399	metal-binding, possibly nucleic acid-binding protein
BER92_14030	COG0424	maF-like protein
BER92_14050	COG0714	Associated with various cellular activities
BER92_14070	COG0537	adenosine 5'-monophosphoramidase activity
BER92_14080	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
BER92_14100	COG0314	molybdopterin synthase activity
BER92_14110	COG0315	cyclic pyranopterin monophosphate synthase activity
BER92_14115	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
BER92_14120	COG1234	tRNA 3'-trailer cleavage
BER92_14130	COG0859	PFAM glycosyl transferase family 9
BER92_14145	COG0631	protein serine/threonine phosphatase activity
BER92_14150	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
BER92_14165	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
BER92_14170	COG1388	LysM domain
BER92_14170	COG3942	CHAP domain
BER92_14180	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
BER92_14185	COG0823	Involved in the tonB-independent uptake of proteins
BER92_14185	COG1506	peptidase
BER92_14190	COG1297	OPT oligopeptide transporter protein
BER92_14220	COG0587	DNA-directed DNA polymerase activity
BER92_14270	COG2080	2 iron, 2 sulfur cluster binding
BER92_14275	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
BER92_14280	COG1529	Aldehyde oxidase and xanthine dehydrogenase
BER92_14285	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_14330	COG3039	Transposase
BER92_14355	COG0544	peptidyl-prolyl cis-trans isomerase activity
BER92_14360	COG0740	serine-type endopeptidase activity
BER92_14365	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
BER92_14395	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
BER92_14420	COG0602	queuosine metabolic process
BER92_14430	COG2885	chlorophyll binding
BER92_14435	COG0823	Involved in the tonB-independent uptake of proteins
BER92_14445	COG0848	biopolymer transport protein
BER92_14455	COG0824	Thioesterase
BER92_14495	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)
BER92_14510	COG2951	lytic endotransglycosylase activity
BER92_14515	COG0488	(ABC) transporter
BER92_14545	COG4651	solute:proton antiporter activity
BER92_14545	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
BER92_14575	COG1113	amino acid transport
BER92_14585	COG0840	transmembrane signaling receptor activity
BER92_14600	COG2197	response regulator
BER92_14605	COG0531	amino acid
BER92_14635	COG0754	glutathionylspermidine amidase activity
BER92_14660	COG1842	Phage shock protein A
BER92_14680	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
BER92_14695	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
BER92_14700	COG2814	Major facilitator Superfamily
BER92_14705	COG3039	Transposase
BER92_14715	COG5002	protein histidine kinase activity
BER92_14715	COG0784	Response regulator, receiver
BER92_14740	COG0784	Response regulator, receiver
BER92_14740	COG4191	Histidine kinase
BER92_14770	COG2207	Transcriptional regulator
BER92_14780	COG3152	Membrane
BER92_14795	COG3125	oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor
BER92_14800	COG1845	cytochrome c oxidase, subunit III
BER92_14805	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
BER92_14810	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
BER92_14820	COG0761	Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis
BER92_14825	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
BER92_14835	COG0196	riboflavin kinase activity
BER92_14850	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
BER92_14865	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
BER92_14870	COG0824	Thioesterase
BER92_14885	COG1946	Acyl-CoA thioesterase
BER92_14900	COG1595	DNA-templated transcription, initiation
BER92_14910	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
BER92_14935	COG2963	transposase activity
BER92_14970	COG0122	3-methyladenine DNA glycosylase 8-oxoguanine DNA glycosylase
BER92_14985	COG2197	response regulator
BER92_14990	COG4585	Histidine kinase
BER92_15005	COG2894	cell division
BER92_15010	COG0851	Prevents the cell division inhibition by proteins MinC and MinD at internal division sites while permitting inhibition at polar sites. This ensures cell division at the proper site by restricting the formation of a division septum at the midpoint of the long axis of the cell
BER92_15020	COG0642	Histidine kinase
BER92_15040	COG2194	sulfuric ester hydrolase activity
BER92_15060	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
BER92_15060	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
BER92_15065	COG0753	catalase activity
BER92_15075	COG2207	Transcriptional regulator
BER92_15075	COG1917	Cupin 2, conserved barrel domain protein
BER92_15120	COG4772	TonB-dependent receptor
BER92_15130	COG4264	IucA IucC family
BER92_15140	COG4264	IucA IucC family
BER92_15145	COG0019	diaminopimelate decarboxylase activity
BER92_15160	COG0542	response to heat
BER92_15215	COG3501	Rhs element vgr protein
BER92_15220	COG2801	Transposase and inactivated derivatives
BER92_15225	COG2963	transposase activity
BER92_15280	COG0473	3-isopropylmalate dehydrogenase activity
BER92_15300	COG4783	chaperone-mediated protein folding
BER92_15315	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
BER92_15330	COG0671	phosphoesterase, PA-phosphatase related
BER92_15335	COG2908	Hydrolyzes the pyrophosphate bond of UDP-2,3- diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate (lipid X) and UMP by catalyzing the attack of water at the alpha-P atom. Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
BER92_15345	COG3291	Pkd domain containing protein
BER92_15355	COG2833	Protein of unknown function (DUF455)
BER92_15375	COG0285	dihydrofolate synthase activity
BER92_15405	COG3537	Alpha-1,2-mannosidase
BER92_15460	COG3645	SOS response
BER92_15475	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
BER92_15495	COG2963	transposase activity
BER92_15515	COG1183	phosphatidylcholine synthase activity
BER92_15540	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
BER92_15545	COG1127	ABC transporter
BER92_15550	COG3218	ABC-type transport auxiliary lipoprotein component
BER92_15550	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
BER92_15580	COG1788	Acyl CoA acetate 3-ketoacid CoA transferase, alpha subunit
BER92_15585	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
BER92_15615	COG2086	electron transfer activity
BER92_15650	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
BER92_15655	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
BER92_15695	COG0626	cystathionine gamma-synthase activity
BER92_15730	COG0625	glutathione transferase activity
BER92_15740	COG0513	Belongs to the DEAD box helicase family
BER92_15745	COG0720	synthase
BER92_15755	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
BER92_15760	COG1956	GAF domain-containing protein
BER92_15775	COG3039	Transposase
BER92_15785	COG0546	phosphoglycolate phosphatase activity
BER92_15790	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
BER92_15800	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
BER92_15815	COG0339	signal peptide processing
BER92_15830	COG2132	Multicopper oxidase
BER92_15850	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
BER92_15865	COG3852	Histidine kinase
BER92_15875	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
BER92_15890	COG0355	proton-transporting ATP synthase activity, rotational mechanism
BER92_15900	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
BER92_15910	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
BER92_15925	COG0356	it plays a direct role in the translocation of protons across the membrane
BER92_15940	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
BER92_15975	COG2011	ABC-type metal ion transport system permease component
BER92_15980	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
BER92_15985	COG1666	GTP binding
BER92_16030	COG1187	pseudouridine synthase activity
BER92_16035	COG2813	Specifically methylates the guanine in position
BER92_16055	COG2202	Pas domain
BER92_16055	COG2205	protein histidine kinase activity
BER92_16075	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
BER92_16080	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
BER92_16205	COG2801	Transposase and inactivated derivatives
BER92_16255	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
BER92_16260	COG0511	ligase activity, forming carbon-carbon bonds
BER92_16270	COG0439	Biotin carboxylase
BER92_16275	COG2264	protein methyltransferase activity
BER92_16295	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
BER92_16305	COG0138	bifunctional purine biosynthesis protein purh
BER92_16310	COG0151	Belongs to the GarS family
BER92_16315	COG1289	transmembrane transporter activity
BER92_16320	COG2814	Major facilitator Superfamily
BER92_16335	COG2814	Major facilitator Superfamily
BER92_16350	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
BER92_16355	COG2816	NAD+ diphosphatase activity
BER92_16365	COG3039	Transposase
BER92_16375	COG2963	transposase activity
BER92_16380	COG2801	Transposase and inactivated derivatives
BER92_16425	COG1733	regulation of RNA biosynthetic process
BER92_16430	COG0129	dihydroxy-acid dehydratase activity
BER92_16435	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
BER92_16450	COG2963	transposase activity
BER92_16465	COG3039	Transposase
BER92_16470	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
BER92_16475	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
BER92_16490	COG1902	pentaerythritol trinitrate reductase activity
BER92_16495	COG0846	NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form
BER92_16505	COG2814	Major facilitator Superfamily
BER92_16510	COG0084	hydrolase, TatD family'
BER92_16515	COG4807	Protein conserved in bacteria
BER92_16525	COG1643	Atp-dependent helicase
BER92_16545	COG1187	pseudouridine synthase activity
BER92_16560	COG2130	NADP-dependent
BER92_16565	COG0656	L-ascorbic acid biosynthetic process
BER92_16575	COG1764	response to oxidative stress
BER92_16585	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
BER92_16630	COG1960	acyl-CoA dehydrogenase activity
BER92_16635	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
BER92_16680	COG2801	Transposase and inactivated derivatives
BER92_16685	COG2801	Transposase and inactivated derivatives
BER92_16690	COG2963	transposase activity
BER92_16700	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
BER92_16710	COG0529	Catalyzes the synthesis of activated sulfate
BER92_16710	COG2895	sulfate adenylyltransferase (ATP) activity
BER92_16720	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
BER92_16725	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
BER92_16750	COG0784	Response regulator, receiver
BER92_16750	COG2205	protein histidine kinase activity
BER92_16750	COG2198	Histidine kinase
BER92_16780	COG3588	fructose-bisphosphate aldolase
BER92_16785	COG0469	pyruvate kinase activity
BER92_16820	COG2205	protein histidine kinase activity
BER92_16825	COG1104	cysteine desulfurase activity
BER92_16860	COG2963	transposase activity
BER92_16865	COG2801	Transposase and inactivated derivatives
BER92_16875	COG3039	Transposase
BER92_16890	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
BER92_16905	COG3453	Protein conserved in bacteria
BER92_16905	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
BER92_16910	COG0725	ABC transporter, periplasmic molybdate-binding protein
BER92_16915	COG4149	molybdate abc transporter
BER92_16920	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
BER92_16945	COG1376	ErfK ybiS ycfS ynhG family protein
BER92_16950	COG1196	nuclear chromosome segregation
BER92_16950	COG0739	heme binding
BER92_16950	COG0741	lytic transglycosylase activity
BER92_16955	COG4773	Receptor
BER92_16965	COG1301	dicarboxylic acid transport
BER92_16995	COG0714	Associated with various cellular activities
BER92_17020	COG3039	Transposase
BER92_17035	COG0025	NhaP-type Na H and K H
BER92_17060	COG2335	COG2335, Secreted and surface protein containing fasciclin-like repeats
BER92_17065	COG1573	uracil-dna glycosylase
BER92_17075	COG0667	Aldo Keto reductase
BER92_17085	COG3590	peptidase
BER92_17100	COG0531	amino acid
BER92_17115	COG3685	Protein conserved in bacteria
BER92_17120	COG3546	catalase activity
BER92_17150	COG2204	response regulator
BER92_17175	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_17180	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
BER92_17200	COG1132	(ABC) transporter
BER92_17215	COG1063	alcohol dehydrogenase
BER92_17300	COG0659	secondary active sulfate transmembrane transporter activity
BER92_17325	COG2963	transposase activity
BER92_17415	COG3052	prosthetic group binding
BER92_17430	COG3385	transposase activity
BER92_17435	COG2353	YceI-like domain
BER92_17440	COG0778	Nitroreductase
BER92_17450	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
BER92_17455	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
BER92_17465	COG3386	PFAM SMP-30 Gluconolaconase
BER92_17485	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
BER92_17500	COG3385	transposase activity
BER92_17505	COG0459	protein refolding
BER92_17510	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
BER92_17525	COG1324	tolerance protein
BER92_17530	COG4232	protein-disulfide reductase activity
BER92_17560	COG2801	Transposase and inactivated derivatives
BER92_17565	COG2963	transposase activity
BER92_17570	COG0702	epimerase
BER92_17595	COG0296	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position
BER92_17600	COG0296	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position
BER92_17605	COG0297	glycogen (starch) synthase activity
BER92_17620	COG2354	Protein conserved in bacteria
BER92_17625	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
BER92_17630	COG1511	domain protein
BER92_17630	COG3264	Mechanosensitive ion channel
BER92_17650	COG1040	competence protein
BER92_17655	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
BER92_17750	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
BER92_17765	COG2963	transposase activity
BER92_17780	COG0339	signal peptide processing
BER92_17845	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
BER92_17850	COG0318	PFAM AMP-dependent synthetase and ligase
BER92_17860	COG0596	Alpha beta hydrolase
BER92_17880	COG0316	Belongs to the HesB IscA family
BER92_17935	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
BER92_17940	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
BER92_17960	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
BER92_17970	COG0134	indole-3-glycerol-phosphate synthase activity
BER92_17975	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
BER92_18045	COG1597	lipid kinase activity
BER92_18050	COG0456	acetyltransferase
BER92_18065	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
BER92_18105	COG2111	Na H antiporter
BER92_18105	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
BER92_18110	COG1006	Multisubunit Na H antiporter MnhC subunit
BER92_18115	COG0651	ATP synthesis coupled electron transport
BER92_18125	COG2212	antiporter activity
BER92_18130	COG1320	monovalent cation:proton antiporter activity
BER92_18135	COG3039	Transposase
BER92_18170	COG3023	N-Acetylmuramoyl-L-alanine amidase
BER92_18180	COG4948	Mandelate Racemase Muconate Lactonizing
BER92_18190	COG0531	amino acid
BER92_18210	COG2133	pyrroloquinoline quinone binding
BER92_18220	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
BER92_18225	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
BER92_18230	COG0828	Belongs to the bacterial ribosomal protein bS21 family
BER92_18240	COG1295	ribonuclease BN
BER92_18245	COG0358	DNA primase activity
BER92_18260	COG0109	protoheme IX farnesyltransferase activity
BER92_18290	COG3175	Exerts its effect at some terminal stage of cytochrome c oxidase synthesis, probably by being involved in the insertion of the copper B into subunit I
BER92_18300	COG1622	oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor
BER92_18320	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)
BER92_18325	COG0739	heme binding
BER92_18330	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
BER92_18340	COG2211	Major facilitator Superfamily
BER92_18350	COG0708	Exodeoxyribonuclease III
BER92_18365	COG1192	Involved in chromosome partitioning
BER92_18370	COG1475	DNA binding
BER92_18390	COG0463	Glycosyl transferase, family 2
BER92_18415	COG0452	Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine
BER92_18420	COG2003	Belongs to the UPF0758 family
BER92_18425	COG0018	arginyl-trna synthetase
BER92_18435	COG4221	oxidoreductase activity
BER92_18465	COG1819	glycosyl
BER92_18470	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
BER92_18480	COG2205	protein histidine kinase activity
BER92_18485	COG0745	RESPONSE REGULATOR receiver
BER92_18495	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
BER92_18520	COG1199	ATP-dependent helicase activity
BER92_18590	COG0174	glutamine synthetase
BER92_18595	COG0347	Belongs to the P(II) protein family
BER92_18600	COG0004	ammonium transporteR
BER92_18605	COG3852	Histidine kinase
BER92_18610	COG2204	response regulator
BER92_18615	COG2032	superoxide dismutase activity
BER92_18620	COG2032	superoxide dismutase activity
BER92_18660	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
BER92_18670	COG2062	phosphohistidine phosphatase, SixA
BER92_18675	COG0489	protein tyrosine kinase activity
BER92_18710	COG1262	PFAM Formylglycine-generating sulfatase enzyme
BER92_18725	COG1125	glycine betaine transport
BER92_18735	COG1119	ATPase activity
BER92_18740	COG1522	sequence-specific DNA binding
BER92_18745	COG3186	Phenylalanine-4-hydroxylase
BER92_18750	COG1028	Short-chain dehydrogenase reductase Sdr
BER92_18755	COG3717	Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate
BER92_18765	COG1609	Transcriptional regulator
BER92_18790	COG0657	acetylesterase activity
BER92_18790	COG2755	lipolytic protein G-D-S-L family
BER92_18810	COG0366	Alpha amylase catalytic
BER92_18815	COG0366	Alpha amylase catalytic
BER92_18885	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
BER92_18895	COG2730	Belongs to the glycosyl hydrolase 5 (cellulase A) family
BER92_18900	COG1064	alcohol dehydrogenase
BER92_18905	COG0493	'glutamate synthase
BER92_18910	COG0069	glutamate synthase activity
BER92_18910	COG0067	glutamate synthase
BER92_18910	COG0070	glutamate synthase
BER92_18935	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
BER92_18940	COG0518	GMP synthase (glutamine-hydrolyzing) activity
BER92_18940	COG0519	Catalyzes the synthesis of GMP from XMP
BER92_18950	COG0805	protein transport
BER92_18955	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
BER92_18970	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
BER92_18985	COG2974	May be involved in recombination
BER92_18990	COG0037	tRNA processing
BER92_19000	COG3661	Belongs to the glycosyl hydrolase 67 family
BER92_19025	COG2801	Transposase and inactivated derivatives
BER92_19030	COG2963	transposase activity
BER92_19070	COG0676	glucose-6-phosphate 1-epimerase activity
BER92_19080	COG3012	SEC-C Motif Domain Protein
BER92_19085	COG0730	response to heat
BER92_19125	COG0302	gtp cyclohydrolase
BER92_19130	COG0477	Major facilitator Superfamily
BER92_19160	COG3039	Transposase
BER92_19180	COG3549	Plasmid maintenance system killer
BER92_19190	COG1074	ATP-dependent DNA helicase activity
BER92_19195	COG1330	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit recognizes the wild- type Chi sequence, and when added to isolated RecB increases its ATP-dependent helicase processivity
BER92_19200	COG1127	ABC transporter
BER92_19205	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
BER92_19210	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
BER92_19225	COG2853	Lipoprotein
BER92_19235	COG0386	Belongs to the glutathione peroxidase family
BER92_19245	COG1322	Protein conserved in bacteria
BER92_19255	COG0531	amino acid
BER92_19265	COG2203	Gaf domain
BER92_19265	COG2199	diguanylate cyclase activity
BER92_19270	COG1929	Belongs to the glycerate kinase type-1 family
BER92_19285	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
BER92_19290	COG0861	Integral membrane protein TerC family
BER92_19300	COG2963	transposase activity
BER92_19315	COG0706	membrane insertase activity
BER92_19320	COG0594	ribonuclease P activity
BER92_19325	COG0230	Belongs to the bacterial ribosomal protein bL34 family
BER92_19335	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
BER92_19345	COG0741	lytic transglycosylase activity
BER92_19360	COG0630	type IV secretory pathway, VirB11 components, and related ATPases involved in Archaeal flagella biosynthesis
BER92_19370	COG3504	Conjugal transfer protein
BER92_19395	COG3451	type IV secretory pathway VirB4
BER92_19440	COG1192	Involved in chromosome partitioning
BER92_19500	COG3077	Addiction module antitoxin, RelB DinJ family
BER92_19585	COG3077	Addiction module antitoxin, RelB DinJ family
BER92_19595	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
BER92_19650	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs