locus-tag	class	description
D1099_00005	COG0593	it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids
D1099_00010	COG0592	DNA-directed DNA polymerase activity
D1099_00015	COG1195	it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP
D1099_00025	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
D1099_00040	COG0616	signal peptide processing
D1099_00055	COG3116	cell division
D1099_00060	COG0768	penicillin binding
D1099_00065	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
D1099_00070	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
D1099_00080	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
D1099_00085	COG0772	Belongs to the SEDS family
D1099_00095	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
D1099_00100	COG1181	Belongs to the D-alanine--D-alanine ligase family
D1099_00110	COG0849	cell division
D1099_00115	COG0206	Essential cell division protein that forms a contractile ring structure (Z ring) at the future cell division site. The regulation of the ring assembly controls the timing and the location of cell division. One of the functions of the FtsZ ring is to recruit other cell division proteins to the septum to produce a new cell wall between the dividing cells. Binds GTP and shows GTPase activity
D1099_00120	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
D1099_00125	COG0497	DNA recombination
D1099_00130	COG4172	Belongs to the ABC transporter superfamily
D1099_00135	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
D1099_00140	COG0601	transmembrane transport
D1099_00165	COG0193	aminoacyl-tRNA hydrolase activity
D1099_00170	COG0012	GTP binding
D1099_00175	COG2020	methyltransferase activity
D1099_00185	COG3133	Outer membrane lipoprotein
D1099_00190	COG3102	Protein conserved in bacteria
D1099_00195	COG0018	arginyl-trna synthetase
D1099_00210	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
D1099_00215	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
D1099_00220	COG0060	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)
D1099_00225	COG0196	riboflavin kinase activity
D1099_00230	COG3172	ATPase kinase involved in NAD metabolism
D1099_00235	COG2129	metallophosphoesterase
D1099_00240	COG0745	RESPONSE REGULATOR receiver
D1099_00250	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
D1099_00255	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
D1099_00265	COG1217	gtp-binding protein TYPA
D1099_00270	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
D1099_00275	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
D1099_00280	COG1561	YicC-like family, N-terminal region
D1099_00285	COG0354	folic acid binding
D1099_00290	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
D1099_00295	COG2197	response regulator
D1099_00305	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
D1099_00340	COG0747	negative chemotaxis
D1099_00345	COG0747	negative chemotaxis
D1099_00350	COG0601	transmembrane transport
D1099_00355	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
D1099_00360	COG0444	Belongs to the ABC transporter superfamily
D1099_00365	COG4608	Belongs to the ABC transporter superfamily
D1099_00380	COG0251	oxidation-reduction process
D1099_00385	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
D1099_00390	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
D1099_00395	COG0353	May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO
D1099_00400	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
D1099_00405	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
D1099_00410	COG0848	biopolymer transport protein
D1099_00415	COG0811	peptide transport
D1099_00425	COG3118	belongs to the thioredoxin family
D1099_00430	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)
D1099_00430	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
D1099_00430	COG3412	dihydroxyacetone kinase, phosphotransfer subunit
D1099_00435	COG1461	Dihydroxyacetone kinase
D1099_00440	COG2376	Dihydroxyacetone kinase
D1099_00445	COG0492	ferredoxin-NADP+ reductase activity
D1099_00455	COG3753	Protein conserved in bacteria
D1099_00475	COG3030	protein affecting phage T7 exclusion by the F plasmid
D1099_00480	COG0006	proline dipeptidase activity
D1099_00490	COG3076	Globally modulates RNA abundance by binding to RNase E (Rne) and regulating its endonucleolytic activity. Can modulate Rne action in a substrate-dependent manner by altering the composition of the degradosome
D1099_00510	COG0129	dihydroxy-acid dehydratase activity
D1099_00515	COG3978	acetolactate synthase activity
D1099_00530	COG3303	Catalyzes the reduction of nitrite to ammonia, consuming six electrons in the process
D1099_00535	COG0437	4 iron, 4 sulfur cluster binding
D1099_00540	COG3301	Polysulphide reductase, NrfD
D1099_00550	COG5295	Hep Hag repeat protein
D1099_00550	COG5295	Hep Hag repeat protein
D1099_00550	COG5295	Hep Hag repeat protein
D1099_00565	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
D1099_00570	COG1414	Transcriptional regulator
D1099_00575	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
D1099_00585	COG3027	Activator of cell division through the inhibition of FtsZ GTPase activity, therefore promoting FtsZ assembly into bundles of protofilaments necessary for the formation of the division Z ring. It is recruited early at mid-cell but it is not essential for cell division
D1099_00595	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
D1099_00600	COG3068	Protein conserved in bacteria
D1099_00620	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
D1099_00625	COG1278	Cold shock
D1099_00630	COG3109	RNA chaperone with significant RNA binding, RNA strand exchange and RNA duplexing activities
D1099_00635	COG0793	Belongs to the peptidase S41A family
D1099_00640	COG2989	Protein conserved in bacteria
D1099_00645	COG3108	Peptidase M15
D1099_00650	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
D1099_00665	COG0537	adenosine 5'-monophosphoramidase activity
D1099_00670	COG1108	ABC-type Mn2 Zn2 transport systems permease components
D1099_00675	COG1108	ABC-type Mn2 Zn2 transport systems permease components
D1099_00685	COG1162	GTPase activity
D1099_00690	COG0583	DNA-binding transcription factor activity
D1099_00695	COG1011	Hydrolase
D1099_00700	COG0583	DNA-binding transcription factor activity
D1099_00710	COG0252	asparaginase activity
D1099_00715	COG0504	CTP synthase activity
D1099_00720	COG5413	integral membrane protein
D1099_00735	COG3835	regulator
D1099_00740	COG2610	gluconate transmembrane transporter activity
D1099_00745	COG1929	Belongs to the glycerate kinase type-1 family
D1099_00750	COG1254	Belongs to the acylphosphatase family
D1099_00755	COG3593	DNA synthesis involved in DNA repair
D1099_00760	COG1611	Belongs to the LOG family
D1099_00765	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
D1099_00775	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
D1099_00780	COG0316	Belongs to the HesB IscA family
D1099_00780	COG0694	Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins
D1099_00785	COG1726	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
D1099_00790	COG1805	sodium ion transport
D1099_00795	COG2869	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
D1099_00800	COG1347	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
D1099_00805	COG2209	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
D1099_00810	COG2871	sodium ion transport
D1099_00815	COG1477	protein flavinylation
D1099_00820	COG2991	Protein conserved in bacteria
D1099_00830	COG2814	Major facilitator Superfamily
D1099_00835	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
D1099_00840	COG2974	May be involved in recombination
D1099_00845	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
D1099_00865	COG4657	Part of a membrane complex involved in electron transport
D1099_00870	COG2878	Part of a membrane complex involved in electron transport
D1099_00875	COG4656	Part of a membrane complex involved in electron transport
D1099_00885	COG4658	electron transport chain
D1099_00900	COG1560	Kdo2-lipid A biosynthetic process
D1099_00905	COG0402	S-adenosylhomocysteine deaminase activity
D1099_00910	COG4143	(ABC) transporter
D1099_00915	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
D1099_00920	COG0617	tRNA 3'-terminal CCA addition
D1099_00925	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
D1099_00935	COG2911	Protein conserved in bacteria
D1099_00945	COG0346	lactoylglutathione lyase activity
D1099_00950	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
D1099_00960	COG1605	Chorismate mutase
D1099_00960	COG0287	Prephenate dehydrogenase
D1099_00965	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
D1099_00970	COG0859	PFAM glycosyl transferase family 9
D1099_00975	COG0469	pyruvate kinase activity
D1099_00980	COG2062	phosphohistidine phosphatase, SixA
D1099_00985	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
D1099_00990	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
D1099_00995	COG0733	neurotransmitter:sodium symporter activity
D1099_01000	COG0338	D12 class N6 adenine-specific DNA methyltransferase
D1099_01005	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
D1099_01010	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
D1099_01015	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
D1099_01020	COG4972	Pilus assembly protein
D1099_01040	COG4796	Type ii and iii secretion system protein
D1099_01045	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
D1099_01050	COG0611	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1
D1099_01055	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
D1099_01060	COG1280	lysine exporter protein (LysE YggA)
D1099_01065	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
D1099_01075	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)
D1099_01090	COG0061	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP
D1099_01145	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
D1099_01150	COG0291	Belongs to the bacterial ribosomal protein bL35 family
D1099_01155	COG0292	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit
D1099_01170	COG1253	flavin adenine dinucleotide binding
D1099_01175	COG0564	pseudouridine synthase activity
D1099_01180	COG0588	phosphoglycerate mutase activity
D1099_01185	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
D1099_01190	COG1678	Uncharacterized ACR, COG1678
D1099_01195	COG1385	rRNA (uridine-N3-)-methyltransferase activity
D1099_01205	COG0271	Belongs to the BolA IbaG family
D1099_01230	COG0653	protein targeting
D1099_01240	COG0494	nUDIX hydrolase
D1099_01245	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
D1099_01255	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
D1099_01270	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
D1099_01275	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
D1099_01280	COG0083	homoserine kinase activity
D1099_01285	COG0460	homoserine dehydrogenase
D1099_01285	COG0527	aspartate kinase activity
D1099_01290	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
D1099_01295	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
D1099_01300	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
D1099_01330	COG2195	Cleaves the N-terminal amino acid of tripeptides
D1099_01335	COG2236	Acts on guanine, xanthine and to a lesser extent hypoxanthine
D1099_01340	COG0194	GDP metabolic process
D1099_01345	COG1538	Outer membrane efflux protein
D1099_01350	COG2914	Belongs to the UPF0125 (RnfH) family
D1099_01355	COG2867	negative regulation of translational initiation
D1099_01360	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
D1099_01365	COG4149	molybdate abc transporter
D1099_01370	COG0725	ABC transporter, periplasmic molybdate-binding protein
D1099_01375	COG0842	Transport permease protein
D1099_01380	COG1131	(ABC) transporter
D1099_01390	COG2812	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
D1099_01395	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
D1099_01405	COG0251	oxidation-reduction process
D1099_01410	COG0031	Belongs to the cysteine synthase cystathionine beta- synthase family
D1099_01415	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
D1099_01420	COG1121	(ABC) transporter
D1099_01430	COG2920	part of a sulfur-relay system
D1099_01435	COG0670	Belongs to the BI1 family
D1099_01440	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
D1099_01455	COG0084	hydrolase, TatD family'
D1099_01460	COG0210	DNA helicase
D1099_01465	COG3842	ATPase activity
D1099_01470	COG1176	ABC-type spermidine putrescine transport system, permease component I
D1099_01475	COG1177	transmembrane transport
D1099_01490	COG2255	four-way junction helicase activity
D1099_01500	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
D1099_01535	COG0488	(ABC) transporter
D1099_01540	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
D1099_01550	COG1271	oxidase subunit
D1099_01555	COG1294	oxidase, subunit
D1099_01570	COG0824	Thioesterase
D1099_01575	COG0811	peptide transport
D1099_01580	COG0848	biopolymer transport protein
D1099_01585	COG3064	Membrane
D1099_01585	COG3064	Membrane
D1099_01590	COG0823	Involved in the tonB-independent uptake of proteins
D1099_01605	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
D1099_01610	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
D1099_01620	COG0488	(ABC) transporter
D1099_01630	COG0303	'Molybdopterin
D1099_01635	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
D1099_01645	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
D1099_01650	COG0232	Belongs to the dGTPase family. Type 2 subfamily
D1099_01655	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
D1099_01660	COG0564	pseudouridine synthase activity
D1099_01665	COG3023	N-Acetylmuramoyl-L-alanine amidase
D1099_01670	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
D1099_01675	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
D1099_01680	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
D1099_01685	COG0626	cystathionine gamma-synthase activity
D1099_01690	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
D1099_01705	COG1702	phosphate starvation-inducible protein PhoH
D1099_01740	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
D1099_01790	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
D1099_01810	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
D1099_01815	COG1660	Displays ATPase and GTPase activities
D1099_01820	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
D1099_01825	COG1137	ATPase activity
D1099_01830	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
D1099_01840	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
D1099_01845	COG1512	COG1512 Beta-propeller domains of methanol dehydrogenase type
D1099_01855	COG1704	LemA family
D1099_01860	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
D1099_01860	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
D1099_01860	COG3925	protein-phosphocysteine-D-fructose-phosphotransferase system transporter activity
D1099_01865	COG1105	Belongs to the carbohydrate kinase PfkB family
D1099_01870	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
D1099_01870	COG4668	phosphoenolpyruvate-dependent sugar phosphotransferase system
D1099_01880	COG1523	belongs to the glycosyl hydrolase 13 family
D1099_01885	COG0448	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans
D1099_01890	COG0297	glycogen (starch) synthase activity
D1099_01895	COG0058	SHG alpha-glucan phosphorylase activity
D1099_01920	COG1187	pseudouridine synthase activity
D1099_01925	COG2814	Major facilitator Superfamily
D1099_01935	COG3381	protein complex oligomerization
D1099_01945	COG0791	NLP P60 protein
D1099_01950	COG2932	Transcriptional regulator
D1099_01955	COG3445	Acts as a radical domain for damaged PFL and possibly other radical proteins
D1099_01960	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
D1099_01965	COG2990	Protein conserved in bacteria
D1099_01975	COG1643	Atp-dependent helicase
D1099_01980	COG2707	UPF0756 membrane protein
D1099_01990	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
D1099_01995	COG0534	Mate efflux family protein
D1099_02000	COG1074	ATP-dependent DNA helicase activity
D1099_02005	COG0815	Transfers the fatty acyl group on membrane lipoproteins
D1099_02010	COG4535	Mg2 and Co2 transporter CorC
D1099_02020	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
D1099_02025	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
D1099_02030	COG0466	ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner
D1099_02035	COG2271	Major facilitator Superfamily
D1099_02040	COG0584	glycerophosphoryl diester phosphodiesterase
D1099_02045	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
D1099_02050	COG3075	Conversion of glycerol 3-phosphate to dihydroxyacetone. Uses fumarate or nitrate as electron acceptor
D1099_02055	COG0247	lactate metabolic process
D1099_02085	COG0517	IMP dehydrogenase activity
D1099_02085	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
D1099_02095	COG2503	HAD superfamily, subfamily IIIB (Acid phosphatase)
D1099_02100	COG0385	Bile acid
D1099_02105	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
D1099_02110	COG0561	phosphatase activity
D1099_02120	COG1595	DNA-templated transcription, initiation
D1099_02125	COG3073	An anti-sigma factor for extracytoplasmic function (ECF) sigma factor sigma-E (RpoE). ECF sigma factors are held in an inactive form by an anti-sigma factor until released by regulated intramembrane proteolysis (RIP). RIP occurs when an extracytoplasmic signal triggers a concerted proteolytic cascade to transmit information and elicit cellular responses. The membrane-spanning regulatory substrate protein is first cut periplasmically (site-1 protease, S1P, DegS), then within the membrane itself (site-2 protease, S2P, RseP), while cytoplasmic proteases finish degrading the anti-sigma factor, liberating sigma-E
D1099_02135	COG0318	PFAM AMP-dependent synthetase and ligase
D1099_02140	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
D1099_02145	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
D1099_02150	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
D1099_02155	COG2065	Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant
D1099_02160	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
D1099_02160	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
D1099_02165	COG1160	GTP binding
D1099_02175	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
D1099_02185	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
D1099_02190	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
D1099_02195	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
D1099_02210	COG0750	zinc metalloprotease
D1099_02215	COG0575	Belongs to the CDS family
D1099_02220	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
D1099_02235	COG0671	phosphoesterase, PA-phosphatase related
D1099_02240	COG1534	Rna-binding protein
D1099_02245	COG0463	Glycosyl transferase, family 2
D1099_02250	COG1686	Belongs to the peptidase S11 family
D1099_02255	COG0859	PFAM glycosyl transferase family 9
D1099_02265	COG0328	RNA-DNA hybrid ribonuclease activity
D1099_02270	COG1286	toxin biosynthetic process
D1099_02275	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
D1099_02285	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
D1099_02290	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
D1099_02300	COG0251	oxidation-reduction process
D1099_02305	COG1496	oxidoreductase activity
D1099_02315	COG5645	(Lipo)protein
D1099_02330	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
D1099_02340	COG1792	Involved in formation and maintenance of cell shape
D1099_02345	COG2891	Involved in formation of the rod shape of the cell. May also contribute to regulation of formation of penicillin-binding proteins
D1099_02350	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
D1099_02355	COG1108	ABC-type Mn2 Zn2 transport systems permease components
D1099_02360	COG0121	glutamine amidotransferase
D1099_02365	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
D1099_02370	COG2949	membrane
D1099_02380	COG1556	Lactate utilization protein
D1099_02385	COG1139	Iron-sulfur cluster binding protein
D1099_02390	COG0247	lactate metabolic process
D1099_02395	COG1620	l-lactate permease
D1099_02400	COG2916	Histone family protein nucleoid-structuring protein H-NS
D1099_02405	COG1757	Na H antiporter
D1099_02410	COG1879	ABC-type sugar transport system periplasmic component
D1099_02415	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
D1099_02425	COG2990	Protein conserved in bacteria
D1099_02430	COG0508	dehydrogenase complex catalyzes the overall conversion of
D1099_02435	COG0567	Dehydrogenase, E1 component
D1099_02440	COG1121	(ABC) transporter
D1099_02445	COG0739	heme binding
D1099_02450	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
D1099_02455	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
D1099_02465	COG0561	phosphatase activity
D1099_02470	COG3850	Histidine kinase
D1099_02480	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
D1099_02490	COG2759	Belongs to the formate--tetrahydrofolate ligase family
D1099_02500	COG4221	oxidoreductase activity
D1099_02525	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
D1099_02525	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
D1099_02540	COG2834	Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane)
D1099_02550	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
D1099_02555	COG0599	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
D1099_02580	COG0640	Transcriptional regulator
D1099_02590	COG0189	ligase activity
D1099_02595	COG1434	Gram-negative-bacterium-type cell wall biogenesis
D1099_02600	COG0280	phosphate acetyltransferase
D1099_02600	COG0281	malic enzyme
D1099_02605	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
D1099_02740	COG0305	Participates in initiation and elongation during chromosome replication
D1099_02785	COG3179	chitinase
D1099_02800	COG3728	DNA packaging
D1099_03050	COG0305	Participates in initiation and elongation during chromosome replication
D1099_03095	COG3179	chitinase
D1099_03110	COG3728	DNA packaging
D1099_03240	COG3683	transport system, periplasmic component
D1099_03245	COG2215	Belongs to the NiCoT transporter (TC 2.A.52) family
D1099_03250	COG1115	amino acid carrier protein
D1099_03255	COG1116	anion transmembrane transporter activity
D1099_03260	COG1116	anion transmembrane transporter activity
D1099_03265	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
D1099_03270	COG2104	thiamine diphosphate biosynthetic process
D1099_03280	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
D1099_03285	COG0819	Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway
D1099_03290	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
D1099_03295	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
D1099_03300	COG0351	phosphomethylpyrimidine kinase
D1099_03305	COG0351	phosphomethylpyrimidine kinase
D1099_03315	COG0481	GTPase activity
D1099_03320	COG0681	Belongs to the peptidase S26 family
D1099_03325	COG0571	ribonuclease III activity
D1099_03330	COG1159	An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism
D1099_03335	COG1381	Involved in DNA repair and RecF pathway recombination
D1099_03385	COG4964	Belongs to the GSP D family
D1099_03400	COG4774	siderophore transport
D1099_03405	COG4178	(ABC) transporter
D1099_03415	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
D1099_03420	COG2194	sulfuric ester hydrolase activity
D1099_03425	COG0528	UMP kinase activity
D1099_03430	COG0233	cytoplasmic translational termination
D1099_03435	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
D1099_03440	COG0214	Catalyzes the formation of pyridoxal 5'-phosphate from ribose 5-phosphate (RBP), glyceraldehyde 3-phosphate (G3P) and ammonia. The ammonia is provided by the PdxT subunit. Can also use ribulose 5-phosphate and dihydroxyacetone phosphate as substrates, resulting from enzyme-catalyzed isomerization of RBP and G3P, respectively
D1099_03450	COG0590	tRNA wobble adenosine to inosine editing
D1099_03455	COG0513	Belongs to the DEAD box helicase family
D1099_03460	COG4785	May be involved in cell division
D1099_03470	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
D1099_03480	COG3095	Involved in chromosome condensation, segregation and cell cycle progression. May participate in facilitating chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division. Probably acts via its interaction with MukB and MukF
D1099_03495	COG3083	sulfuric ester hydrolase activity
D1099_03505	COG1309	transcriptional regulator
D1099_03510	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
D1099_03515	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
D1099_03520	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
D1099_03530	COG3955	Domain of unknown function (DUF1919)
D1099_03535	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
D1099_03550	COG0517	IMP dehydrogenase activity
D1099_03550	COG0516	GMP reductase activity
D1099_03555	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
D1099_03560	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
D1099_03565	COG0814	amino acid
D1099_03570	COG0814	amino acid
D1099_03580	COG3105	Protein conserved in bacteria
D1099_03585	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
D1099_03595	COG3022	response to hydroperoxide
D1099_03610	COG5595	Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310)
D1099_03615	COG1823	symporter activity
D1099_03620	COG0778	Nitroreductase
D1099_03625	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
D1099_03630	COG0072	phenylalanine-tRNA ligase activity
D1099_03635	COG0776	regulation of translation
D1099_03640	COG0791	NLP P60 protein
D1099_03650	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
D1099_03655	COG1940	carbohydrate kinase activity
D1099_03655	COG1846	Transcriptional regulator
D1099_03660	COG0349	Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides
D1099_03665	COG1522	sequence-specific DNA binding
D1099_03670	COG1674	ftsk spoiiie
D1099_03675	COG2321	neutral zinc metallopeptidase
D1099_03680	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
D1099_03685	COG1214	PFAM Peptidase M22, glycoprotease
D1099_03690	COG1435	thymidine kinase activity
D1099_03695	COG3074	FtsZ-dependent cytokinesis
D1099_03700	COG1494	fructose-1,6-bisphosphatase
D1099_03705	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
D1099_03710	COG1136	(ABC) transporter
D1099_03710	COG0577	efflux transmembrane transporter activity
D1099_03720	COG0745	RESPONSE REGULATOR receiver
D1099_03725	COG3956	TIGRFAM MazG family protein
D1099_03735	COG0285	dihydrofolate synthase activity
D1099_03745	COG0779	Required for maturation of 30S ribosomal subunits
D1099_03750	COG0195	Participates in both transcription termination and antitermination
D1099_03755	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
D1099_03760	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
D1099_03765	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
D1099_03770	COG2951	lytic endotransglycosylase activity
D1099_03780	COG0280	phosphate acetyltransferase
D1099_03780	COG0857	belongs to the CobB CobQ family
D1099_03790	COG0737	Belongs to the 5'-nucleotidase family
D1099_03815	COG1210	Utp--glucose-1-phosphate uridylyltransferase
D1099_03825	COG1551	Could accelerate the degradation of some genes transcripts potentially through selective RNA binding
D1099_03835	COG0589	response to stress
D1099_03845	COG2969	positive regulation of protein catabolic process
D1099_03850	COG0625	glutathione transferase activity
D1099_03855	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
D1099_03865	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
D1099_03870	COG1448	Aminotransferase
D1099_03875	COG2801	Transposase and inactivated derivatives
D1099_03880	COG0006	proline dipeptidase activity
D1099_03890	COG0556	nucleotide-excision repair
D1099_03895	COG2822	iron ion transport
D1099_03900	COG2837	iron assimilation
D1099_03910	COG0613	PHP domain protein
D1099_03920	COG2925	Exonuclease
D1099_03925	COG0038	chloride channel
D1099_03930	COG0017	Asparaginyl-tRNA synthetase
D1099_03935	COG1509	lysine 2,3-aminomutase activity
D1099_03945	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
D1099_03950	COG1476	TRANSCRIPTIONal
D1099_03965	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)
D1099_03980	COG0741	lytic transglycosylase activity
D1099_03985	COG0634	Belongs to the purine pyrimidine phosphoribosyltransferase family
D1099_03990	COG0626	cystathionine gamma-synthase activity
D1099_03995	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
D1099_04015	COG2363	Small membrane protein
D1099_04020	COG0277	FAD linked oxidase domain protein
D1099_04025	COG0243	molybdopterin cofactor binding
D1099_04030	COG3005	denitrification pathway
D1099_04040	COG0315	cyclic pyranopterin monophosphate synthase activity
D1099_04045	COG1977	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin
D1099_04050	COG0314	molybdopterin synthase activity
D1099_04055	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
D1099_04060	COG1444	tRNA N-acetyltransferase activity
D1099_04070	COG0583	DNA-binding transcription factor activity
D1099_04095	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
D1099_04100	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
D1099_04115	COG1737	Transcriptional regulator
D1099_04120	COG2731	YhcH YjgK YiaL family protein
D1099_04125	COG0248	Ppx GppA phosphatase
D1099_04130	COG2926	Belongs to the UPF0265 family
D1099_04135	COG0527	aspartate kinase activity
D1099_04140	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
D1099_04145	COG3100	YcgL domain-containing protein
D1099_04150	COG0305	Participates in initiation and elongation during chromosome replication
D1099_04155	COG4607	ABC-type enterochelin transport system periplasmic component
D1099_04160	COG4606	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
D1099_04165	COG4605	iron ion homeostasis
D1099_04170	COG4604	ABC transporter, ATP-binding protein
D1099_04175	COG1392	Phosphate transport regulator
D1099_04180	COG0306	phosphate transporter
D1099_04185	COG4991	sh3 domain protein
D1099_04195	COG3945	hemerythrin HHE cation binding domain
D1099_04200	COG0343	queuine tRNA-ribosyltransferase activity
D1099_04210	COG1278	Cold shock
D1099_04215	COG0288	reversible hydration of carbon dioxide
D1099_04220	COG0028	Belongs to the TPP enzyme family
D1099_04225	COG0440	acetolactate synthase activity
D1099_04230	COG0312	modulator of DNA gyrase
D1099_04235	COG3028	Belongs to the UPF0307 family
D1099_04240	COG3094	Invasion gene expression up-regulator, SirB
D1099_04250	COG1811	Na channel or pump
D1099_04255	COG3787	Belongs to the UPF0306 family
D1099_04260	COG0023	Translation Initiation Factor
D1099_04265	COG0284	orotidine-5'-phosphate decarboxylase activity
D1099_04270	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
D1099_04275	COG3771	Involved in the assembly of lipopolysaccharide (LPS)
D1099_04280	COG0776	regulation of translation
D1099_04285	COG0539	negative regulation of cytoplasmic translation
D1099_04295	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
D1099_04305	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
D1099_04315	COG1785	Belongs to the alkaline phosphatase family
D1099_04320	COG3770	Murein endopeptidase that cleaves the D-alanyl-meso-2,6- diamino-pimelyl amide bond that connects peptidoglycan strands. Likely plays a role in the removal of murein from the sacculus
D1099_04330	COG3264	Mechanosensitive ion channel
D1099_04330	COG3096	Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division
D1099_04335	COG3264	Mechanosensitive ion channel
D1099_04335	COG3096	Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division
D1099_04340	COG0318	PFAM AMP-dependent synthetase and ligase
D1099_04345	COG3057	Negative regulator of replication initiation, which contributes to regulation of DNA replication and ensures that replication initiation occurs exactly once per chromosome per cell cycle. Binds to pairs of hemimethylated GATC sequences in the oriC region, thus preventing assembly of replication proteins and re- initiation at newly replicated origins. Repression is relieved when the region becomes fully methylated
D1099_04350	COG0596	Alpha beta hydrolase
D1099_04360	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
D1099_04375	COG4776	Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction
D1099_04380	COG1380	Effector of murein hydrolase LrgA
D1099_04385	COG1346	cytolysis
D1099_04390	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
D1099_04400	COG0582	viral genome integration into host DNA
D1099_04450	COG4626	Terminase
D1099_04450	COG1802	Transcriptional regulator
D1099_04490	COG3036	rescue of stalled ribosome
D1099_04495	COG2226	methyltransferase
D1099_04515	COG2333	competence protein COMEC
D1099_04515	COG0658	competence protein
D1099_04520	COG3633	Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
D1099_04525	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
D1099_04530	COG0737	Belongs to the 5'-nucleotidase family
D1099_04550	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
D1099_04555	COG0508	dehydrogenase complex catalyzes the overall conversion of
D1099_04560	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
D1099_04570	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)
D1099_04580	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
D1099_04585	COG1132	(ABC) transporter
D1099_04590	COG1346	cytolysis
D1099_04600	COG1199	ATP-dependent helicase activity
D1099_04610	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
D1099_04615	COG0629	single-stranded DNA binding
D1099_04650	COG2070	2-Nitropropane dioxygenase
D1099_04660	COG2315	Protein conserved in bacteria
D1099_04665	COG4172	Belongs to the ABC transporter superfamily
D1099_04670	COG4171	peptide transport system, permease
D1099_04675	COG4168	peptide transport system, permease
D1099_04680	COG4166	transmembrane transport
D1099_04685	COG3283	Transcriptional regulator of aromatic amino acids metabolism
D1099_04690	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
D1099_04695	COG1866	Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA
D1099_04700	COG2919	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
D1099_04720	COG1368	sulfuric ester hydrolase activity
D1099_04725	COG3217	Mosc domain protein beta barrel domain protein
D1099_04725	COG0633	Ferredoxin
D1099_04730	COG1722	exodeoxyribonuclease VII activity
D1099_04735	COG0142	geranyltranstransferase activity
D1099_04745	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
D1099_04750	COG1530	ribonuclease E activity
D1099_04755	COG1944	ATP diphosphatase activity
D1099_04770	COG0500	methyltransferase
D1099_04780	COG2821	murein-degrading enzyme. may play a role in recycling of muropeptides during cell elongation and or cell division
D1099_04835	COG0629	single-stranded DNA binding
D1099_04850	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
D1099_05045	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
D1099_05055	COG2351	hydroxyisourate hydrolase activity
D1099_05065	COG0586	Pfam SNARE associated Golgi protein
D1099_05070	COG0187	DNA topoisomerase II activity
D1099_05075	COG0382	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate
D1099_05080	COG1349	DNA-binding transcription factor activity
D1099_05085	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
D1099_05090	COG2915	High frequency lysogenization protein hflD homolog
D1099_05095	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
D1099_05100	COG4988	ABC transporter
D1099_05105	COG2911	Protein conserved in bacteria
D1099_05110	COG0729	surface antigen
D1099_05115	COG2861	carbohydrate metabolic process
D1099_05120	COG4942	peptidase
D1099_05125	COG0588	phosphoglycerate mutase activity
D1099_05135	COG0572	uridine kinase
D1099_05140	COG0717	Belongs to the dCTP deaminase family
D1099_05145	COG1309	transcriptional regulator
D1099_05150	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
D1099_05155	COG1129	ABC transporter
D1099_05155	COG0842	Transport permease protein
D1099_05160	COG0842	Transport permease protein
D1099_05170	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
D1099_05175	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
D1099_05180	COG0565	Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA
D1099_05200	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
D1099_05205	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
D1099_05210	COG0635	Involved in the biosynthesis of porphyrin-containing compound
D1099_05215	COG4166	transmembrane transport
D1099_05225	COG0444	Belongs to the ABC transporter superfamily
D1099_05230	COG4608	Belongs to the ABC transporter superfamily
D1099_05240	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
D1099_05250	COG0747	negative chemotaxis
D1099_05255	COG0814	amino acid
D1099_05260	COG1760	l-serine dehydratase
D1099_05265	COG4121	Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34
D1099_05265	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
D1099_05270	COG0134	indole-3-glycerol-phosphate synthase activity
D1099_05270	COG0135	phosphoribosylanthranilate isomerase activity
D1099_05275	COG3177	Filamentation induced by cAMP protein fic
D1099_05280	COG3098	single-species biofilm formation
D1099_05285	COG0564	pseudouridine synthase activity
D1099_05290	COG3140	Belongs to the UPF0181 family
D1099_05300	COG3025	triphosphatase activity
D1099_05305	COG3106	COG3106 Predicted ATPase
D1099_05310	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
D1099_05320	COG1473	amidohydrolase
D1099_05325	COG3069	C4-dicarboxylate transmembrane transporter activity
D1099_05335	COG0495	leucyl-tRNA aminoacylation
D1099_05340	COG2980	Together with LptD, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane. Required for the proper assembly of LptD. Binds LPS and may serve as the LPS recognition site at the outer membrane
D1099_05345	COG1466	dna polymerase III delta subunit
D1099_05350	COG3024	Inhibits all the catalytic activities of DNA gyrase by preventing its interaction with DNA. Acts by binding directly to the C-terminal domain of GyrB, which probably disrupts DNA binding by the gyrase
D1099_05355	COG0237	dephospho-CoA kinase activity
D1099_05365	COG1459	type II secretion system
D1099_05370	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
D1099_05375	COG4969	Belongs to the N-Me-Phe pilin family
D1099_05380	COG1066	DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function
D1099_05390	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
D1099_05395	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
D1099_05400	COG0730	response to heat
D1099_05405	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
D1099_05410	COG0183	Belongs to the thiolase family
D1099_05415	COG1024	Enoyl-CoA hydratase
D1099_05415	COG1250	3-hydroxyacyl-CoA dehydrogenase
D1099_05430	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
D1099_05435	COG0243	molybdopterin cofactor binding
D1099_05435	COG3383	formate dehydrogenase (NAD+) activity
D1099_05440	COG0243	molybdopterin cofactor binding
D1099_05440	COG3383	formate dehydrogenase (NAD+) activity
D1099_05445	COG0437	4 iron, 4 sulfur cluster binding
D1099_05450	COG2864	formate dehydrogenase
D1099_05455	COG3058	Necessary for formate dehydrogenase activity
D1099_05485	COG1560	Kdo2-lipid A biosynthetic process
D1099_05490	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
D1099_05500	COG0302	gtp cyclohydrolase
D1099_05505	COG3642	lipopolysaccharide core region biosynthetic process
D1099_05515	COG0110	maltose O-acetyltransferase activity
D1099_05525	COG0583	DNA-binding transcription factor activity
D1099_05545	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
D1099_05550	COG0215	cysteine-tRNA ligase activity
D1099_05555	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
D1099_05560	COG0617	tRNA 3'-terminal CCA addition
D1099_05590	COG2975	iron-sulfur cluster assembly
D1099_05595	COG0633	Ferredoxin
D1099_05615	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
D1099_05625	COG0822	iron-sulfur transferase activity
D1099_05630	COG1104	cysteine desulfurase activity
D1099_05635	COG1959	2 iron, 2 sulfur cluster binding
D1099_05645	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
D1099_05650	COG2198	Histidine kinase
D1099_05650	COG5002	protein histidine kinase activity
D1099_05650	COG0784	Response regulator, receiver
D1099_05655	COG0697	spore germination
D1099_05660	COG2840	Smr protein MutS2
D1099_05665	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
D1099_05670	COG2226	methyltransferase
D1099_05675	COG2830	Protein of unknown function (DUF452)
D1099_05680	COG0156	8-amino-7-oxononanoate synthase activity
D1099_05685	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
D1099_05695	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
D1099_05700	COG2027	D-alanyl-D-alanine carboxypeptidase
D1099_05720	COG2801	Transposase and inactivated derivatives
D1099_05730	COG2856	Zn peptidase
D1099_05735	COG3620	sequence-specific DNA binding
D1099_05775	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
D1099_05780	COG0138	bifunctional purine biosynthesis protein purh
D1099_05815	COG3210	domain, Protein
D1099_05825	COG2831	hemolysin activation secretion protein
D1099_05830	COG1452	involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane
D1099_05835	COG0635	Involved in the biosynthesis of porphyrin-containing compound
D1099_05845	COG3078	GTPase activator activity
D1099_05855	COG0786	glutamate:sodium symporter activity
D1099_05870	COG2350	Protein conserved in bacteria
D1099_05875	COG1607	acyl-coa hydrolase
D1099_05890	COG3092	negative regulation of chromosome organization
D1099_05900	COG2056	Na+-H+ antiporter family
D1099_05905	COG0708	Exodeoxyribonuclease III
D1099_05910	COG0583	DNA-binding transcription factor activity
D1099_05920	COG3306	glycosyltransferase involved in LPS biosynthesis
D1099_05935	COG0254	rRNA binding
D1099_05950	COG0753	catalase activity
D1099_05960	COG1408	metallophosphoesterase
D1099_05965	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
D1099_05970	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
D1099_05975	COG1085	galactose-1-phosphate uridylyltransferase
D1099_05985	COG2017	converts alpha-aldose to the beta-anomer
D1099_06005	COG0489	protein tyrosine kinase activity
D1099_06015	COG2095	MarC family integral membrane protein
D1099_06020	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
D1099_06030	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
D1099_06035	COG2354	Protein conserved in bacteria
D1099_06040	COG3071	HemY protein
D1099_06045	COG2959	enzyme of heme biosynthesis
D1099_06055	COG0181	hydroxymethylbilane synthase activity
D1099_06060	COG1454	alcohol dehydrogenase
D1099_06060	COG1012	belongs to the aldehyde dehydrogenase family
D1099_06075	COG0813	purine-nucleoside phosphorylase activity
D1099_06085	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
D1099_06090	COG2364	Membrane
D1099_06095	COG0800	Aldolase
D1099_06100	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
D1099_06105	COG1904	glucuronate isomerase
D1099_06115	COG2186	Transcriptional regulator
D1099_06125	COG0229	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
D1099_06125	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
D1099_06130	COG1216	Glycosyl transferase, family 2
D1099_06135	COG1216	Glycosyl transferase, family 2
D1099_06145	COG3306	glycosyltransferase involved in LPS biosynthesis
D1099_06155	COG5039	Polysaccharide pyruvyl transferase
D1099_06160	COG1434	Gram-negative-bacterium-type cell wall biogenesis
D1099_06165	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
D1099_06170	COG0077	Prephenate dehydratase
D1099_06170	COG1605	Chorismate mutase
D1099_06175	COG0339	signal peptide processing
D1099_06180	COG1180	Activation of pyruvate formate-lyase under anaerobic conditions by generation of an organic free radical, using S- adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine
D1099_06185	COG1882	Formate acetyltransferase
D1099_06190	COG2116	formate transmembrane transporter activity
D1099_06195	COG1238	metal cluster binding
D1099_06200	COG0501	Belongs to the peptidase M48B family
D1099_06205	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
D1099_06210	COG2431	L-lysine efflux transmembrane transporter activity
D1099_06215	COG1169	isochorismate synthase
D1099_06220	COG0436	Aminotransferase
D1099_06225	COG2962	Rard protein
D1099_06230	COG2962	Rard protein
D1099_06235	COG1280	lysine exporter protein (LysE YggA)
D1099_06240	COG1629	transport
D1099_06240	COG4771	TonB-dependent receptor
D1099_06245	COG0748	coenzyme F420 binding
D1099_06255	COG3088	subunit of a heme lyase
D1099_06255	COG4235	cytochrome complex assembly
D1099_06260	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
D1099_06265	COG1138	Cytochrome C-type biogenesis protein
D1099_06270	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
D1099_06270	COG0475	glutathione-regulated potassium exporter activity
D1099_06280	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
D1099_06290	COG3111	PFAM Bacterial OB fold (BOF) protein
D1099_06305	COG0745	RESPONSE REGULATOR receiver
D1099_06310	COG0642	Histidine kinase
D1099_06315	COG3054	Bacterial protein of unknown function (YtfJ_HI0045)
D1099_06320	COG1862	Preprotein translocase
D1099_06325	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
D1099_06330	COG0341	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA
D1099_06335	COG1528	Iron-storage protein
D1099_06340	COG1528	Iron-storage protein
D1099_06345	COG2252	PERMEase
D1099_06350	COG0424	maF-like protein
D1099_06360	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
D1099_06360	COG0301	tRNA thio-modification
D1099_06370	COG0330	HflC and HflK could
D1099_06375	COG0330	HflC and HflK could
D1099_06380	COG3118	belongs to the thioredoxin family
D1099_06400	COG0531	amino acid
D1099_06405	COG0531	amino acid
D1099_06420	COG3047	cAMP biosynthetic process
D1099_06425	COG0542	response to heat
D1099_06435	COG1393	Belongs to the ArsC family
D1099_06445	COG1027	Aspartate ammonia-lyase
D1099_06455	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
D1099_06460	COG3583	domain protein
D1099_06460	COG3525	Glycosyl hydrolase, family 20, catalytic domain
D1099_06460	COG3064	Membrane
D1099_06470	COG0720	synthase
D1099_06475	COG0602	queuosine metabolic process
D1099_06500	COG0795	lipopolysaccharide-transporting ATPase activity
D1099_06505	COG0795	lipopolysaccharide-transporting ATPase activity
D1099_06535	COG2937	Belongs to the GPAT DAPAT family
D1099_06540	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
D1099_06545	COG3066	DNA modification
D1099_06550	COG0861	Integral membrane protein TerC family
D1099_06560	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
D1099_06565	COG0148	phosphopyruvate hydratase activity
D1099_06570	COG1051	belongs to the nudix hydrolase family
D1099_06575	COG4316	Uncharacterized protein conserved in bacteria (DUF2251)
D1099_06595	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
D1099_06600	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
D1099_06605	COG0564	pseudouridine synthase activity
D1099_06615	COG0205	6-phosphofructokinase activity
D1099_06620	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
D1099_06625	COG1525	nuclease
D1099_06630	COG1115	amino acid carrier protein
D1099_06635	COG0628	permease
D1099_06645	COG0826	peptidase U32
D1099_06650	COG3307	-O-antigen
D1099_06655	COG1519	Transferase
D1099_06665	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
D1099_06670	COG0802	atpase or kinase
D1099_06675	COG0860	N-Acetylmuramoyl-L-alanine amidase
D1099_06675	COG1388	LysM domain
D1099_06680	COG0166	Belongs to the GPI family
D1099_06685	COG2960	long-chain fatty acid transporting porin activity
D1099_06710	COG0169	Involved in the biosynthesis of the chorismate, which leads to the biosynthesis of aromatic amino acids. Catalyzes the reversible NADPH linked reduction of 3-dehydroshikimate (DHSA) to yield shikimate (SA)
D1099_06720	COG0551	DNA topoisomerase type I activity
D1099_06730	COG2137	regulation of response to DNA damage stimulus
D1099_06735	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
D1099_06740	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
D1099_06750	COG1322	Protein conserved in bacteria
D1099_06755	COG0512	Glutamine amidotransferase of anthranilate synthase
D1099_06770	COG0494	nUDIX hydrolase
D1099_06775	COG0217	transcriptional regulatory protein
D1099_06785	COG0817	Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group
D1099_06790	COG0612	Peptidase, M16
D1099_06800	COG0471	metal ion transport
D1099_06805	COG0583	DNA-binding transcription factor activity
D1099_06810	COG3266	domain, Protein
D1099_06820	COG1187	pseudouridine synthase activity
D1099_06825	COG0009	L-threonylcarbamoyladenylate synthase
D1099_06830	COG2837	iron assimilation
D1099_06835	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
D1099_06840	COG0512	Glutamine amidotransferase of anthranilate synthase
D1099_06845	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
D1099_06850	COG2226	methyltransferase
D1099_06855	COG2268	Band 7 protein
D1099_06860	COG2841	Protein conserved in bacteria
D1099_06865	COG0359	binds to the 23S rRNA
D1099_06875	COG2965	DNA replication, synthesis of RNA primer
D1099_06890	COG3201	nicotinamide mononucleotide transporter
D1099_06895	COG2976	Protein conserved in bacteria
D1099_06905	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
D1099_06910	COG1426	Protein conserved in bacteria
D1099_06915	COG0659	secondary active sulfate transmembrane transporter activity
D1099_06925	COG0673	inositol 2-dehydrogenase activity
D1099_06930	COG0475	glutathione-regulated potassium exporter activity
D1099_06930	COG1226	(belongs to the monovalent cation proton antiporter 2 (CPA2) transporter (TC 2.A.37) family)
D1099_06960	COG2207	Transcriptional regulator
D1099_06970	COG1902	pentaerythritol trinitrate reductase activity
D1099_06975	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
D1099_06980	COG2084	Dehydrogenase
D1099_06985	COG0778	Nitroreductase
D1099_06990	COG2095	MarC family integral membrane protein
D1099_07005	COG0625	glutathione transferase activity
D1099_07020	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
D1099_07025	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
D1099_07040	COG1275	C4-dicarboxylate transporter malic acid transport protein
D1099_07045	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
D1099_07060	COG1132	(ABC) transporter
D1099_07065	COG1854	S-ribosylhomocysteine lyase activity
D1099_07070	COG3008	intermembrane lipid transfer
D1099_07075	COG0735	belongs to the Fur family
D1099_07080	COG0716	FMN binding
D1099_07090	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
D1099_07095	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
D1099_07100	COG2252	PERMEase
D1099_07105	COG1553	Part of a sulfur-relay system required for 2-thiolation of 5-methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. Accepts sulfur from TusA and transfers it in turn to TusE
D1099_07110	COG2081	HI0933 family
D1099_07115	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
D1099_07125	COG0560	Phosphoserine phosphatase
D1099_07130	COG1666	GTP binding
D1099_07140	COG0058	SHG alpha-glucan phosphorylase activity
D1099_07145	COG2909	trisaccharide binding
D1099_07155	COG4580	involved in the transport of maltose and maltodextrins
D1099_07160	COG3842	ATPase activity
D1099_07175	COG3833	ABC-type maltose transport systems, permease component
D1099_07180	COG1640	4-alpha-glucanotransferase
D1099_07185	COG1966	Carbon starvation protein
D1099_07190	COG0084	hydrolase, TatD family'
D1099_07195	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
D1099_07205	COG0778	Nitroreductase
D1099_07220	COG4172	Belongs to the ABC transporter superfamily
D1099_07225	COG0191	fructose-bisphosphate aldolase activity
D1099_07230	COG0126	phosphoglycerate kinase activity
D1099_07235	COG0471	metal ion transport
D1099_07240	COG0471	metal ion transport
D1099_07245	COG0471	metal ion transport
D1099_07250	COG0187	DNA topoisomerase II activity
D1099_07255	COG5002	protein histidine kinase activity
D1099_07260	COG0745	RESPONSE REGULATOR receiver
D1099_07285	COG0789	Transcriptional regulator
D1099_07305	COG0300	oxidoreductase activity
D1099_07310	COG0778	Nitroreductase
D1099_07315	COG0616	signal peptide processing
D1099_07320	COG3719	Belongs to the RNase T2 family
D1099_07330	COG1252	NADH dehydrogenase
D1099_07335	COG2183	response to ionizing radiation
D1099_07340	COG3063	Type IV pilus biogenesis stability protein PilW
D1099_07380	COG2161	toxin-antitoxin pair type II binding
D1099_07385	COG4115	mRNA cleavage
D1099_07390	COG2835	tetraacyldisaccharide 4'-kinase activity
D1099_07395	COG1663	tetraacyldisaccharide 4'-kinase activity
D1099_07400	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
D1099_07405	COG0740	serine-type endopeptidase activity
D1099_07410	COG2166	iron-sulfur cluster assembly
D1099_07430	COG0488	(ABC) transporter
D1099_07435	COG0599	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
D1099_07450	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
D1099_07455	COG5007	Belongs to the BolA IbaG family
D1099_07465	COG2854	intermembrane phospholipid transfer
D1099_07470	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
D1099_07475	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
D1099_07480	COG1127	ABC transporter
D1099_07485	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
D1099_07490	COG1090	epimerase
D1099_07520	COG2814	Major facilitator Superfamily
D1099_07550	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
D1099_07560	COG1794	racemase activity, acting on amino acids and derivatives
D1099_07565	COG2814	Major facilitator Superfamily
D1099_07570	COG0363	glucosamine-6-phosphate deaminase activity
D1099_07575	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
D1099_07580	COG1218	3'(2'),5'-bisphosphate nucleotidase
D1099_07585	COG0494	nUDIX hydrolase
D1099_07590	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
D1099_07595	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
D1099_07600	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
D1099_07605	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
D1099_07610	COG0549	Belongs to the carbamate kinase family
D1099_07620	COG3840	Part of the ABC transporter complex ThiBPQ involved in thiamine import. Responsible for energy coupling to the transport system
D1099_07625	COG1178	ABC-type Fe3 transport system permease component
D1099_07630	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
D1099_07635	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)
D1099_07640	COG2190	(PTS) system
D1099_07650	COG0210	DNA helicase
D1099_07655	COG0378	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG
D1099_07660	COG0409	Hydrogenase expression formation protein
D1099_07665	COG0309	Hydrogenase expression formation protein (HypE)
D1099_07690	COG0068	Along with HypE, it catalyzes the synthesis of the CN ligands of the active site iron of NiFe -hydrogenases using carbamoylphosphate as a substrate. It functions as a carbamoyl transferase using carbamoylphosphate as a substrate and transferring the carboxamido moiety in an ATP-dependent reaction to the thiolate of the C-terminal cysteine of HypE yielding a protein-S-carboxamide
D1099_07695	COG1740	oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor
D1099_07700	COG0437	4 iron, 4 sulfur cluster binding
D1099_07705	COG5557	Pfam Polysulphide reductase, NrfD
D1099_07710	COG0374	Belongs to the NiFe NiFeSe hydrogenase large subunit family
D1099_07715	COG0680	Initiates the rapid degradation of small, acid-soluble proteins during spore germination
D1099_07720	COG1773	rubredoxin
D1099_07725	COG0298	carbon dioxide binding
D1099_07730	COG0375	protein maturation
D1099_07765	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
D1099_07770	COG0308	aminopeptidase N
D1099_07775	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
D1099_07780	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
D1099_07785	COG0295	cytidine deaminase activity
D1099_07790	COG2177	Part of the ABC transporter FtsEX involved in
D1099_07795	COG2884	Cell division ATP-binding protein ftsE
D1099_07800	COG0552	protein localization to endoplasmic reticulum
D1099_07805	COG0742	ribosomal rna small subunit methyltransferase
D1099_07810	COG3099	Belongs to the UPF0263 family
D1099_07815	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
D1099_07825	COG4160	amino acid transport
D1099_07830	COG4215	(ABC) transporter
D1099_07835	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
D1099_07840	COG1126	abc transporter atp-binding protein
D1099_07845	COG1881	PFAM PEBP family protein
D1099_07855	COG3620	sequence-specific DNA binding
D1099_07865	COG4232	protein-disulfide reductase activity
D1099_07870	COG3101	peptidyl-lysine hydroxylation
D1099_07880	COG3107	peptidoglycan biosynthetic process
D1099_07885	COG0792	nuclease activity
D1099_07890	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
D1099_07925	COG1138	Cytochrome C-type biogenesis protein
D1099_07935	COG3114	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
D1099_07940	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
D1099_07945	COG2386	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
D1099_07950	COG4133	protoheme IX ABC transporter activity
D1099_07955	COG0593	it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids
D1099_07985	COG3630	sodium ion export across plasma membrane
D1099_07995	COG1883	Na -transporting methylmalonyl-CoA oxaloacetate decarboxylase, beta subunit
D1099_08000	COG2824	Alkylphosphonate utilization operon protein PhnA
D1099_08005	COG1858	cytochrome C peroxidase
D1099_08010	COG1872	DUF167
D1099_08015	COG0762	integral membrane protein
D1099_08020	COG3171	Protein conserved in bacteria
D1099_08025	COG0220	tRNA (guanine-N7-)-methyltransferase activity
D1099_08030	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
D1099_08035	COG0416	fatty acid biosynthetic process
D1099_08040	COG0333	Belongs to the bacterial ribosomal protein bL32 family
D1099_08045	COG1399	metal-binding, possibly nucleic acid-binding protein
D1099_08050	COG4137	Cytochrome C assembly protein
D1099_08055	COG4536	flavin adenine dinucleotide binding
D1099_08060	COG0733	neurotransmitter:sodium symporter activity
D1099_08070	COG2893	phosphoenolpyruvate-dependent sugar phosphotransferase system
D1099_08070	COG3444	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
D1099_08075	COG3715	PTS system
D1099_08080	COG3716	PTS system mannose fructose sorbose family IID component
D1099_08115	COG1840	ABC-type Fe3 transport system, periplasmic component
D1099_08130	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
D1099_08145	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
D1099_08150	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
D1099_08155	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
D1099_08175	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
D1099_08185	COG1720	tRNA m6t6A37 methyltransferase activity
D1099_08200	COG3765	Modulates the polysaccharide chain length of enterobacterial common antigen (ECA)
D1099_08210	COG0438	transferase activity, transferring glycosyl groups
D1099_08215	COG1216	Glycosyl transferase, family 2
D1099_08220	COG0438	transferase activity, transferring glycosyl groups
D1099_08230	COG2244	polysaccharide biosynthetic process
D1099_08235	COG0562	UDP-galactopyranose mutase
D1099_08240	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
D1099_08245	COG1835	transferase activity, transferring acyl groups other than amino-acyl groups
D1099_08265	COG0828	Belongs to the bacterial ribosomal protein bS21 family
D1099_08275	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
D1099_08280	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)
D1099_08290	COG0557	exoribonuclease II activity
D1099_08295	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
D1099_08300	COG1309	transcriptional regulator
D1099_08305	COG0583	DNA-binding transcription factor activity
D1099_08310	COG0678	peroxiredoxin activity
D1099_08310	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
D1099_08320	COG4531	ABC-type Zn2 transport system, periplasmic component surface adhesin
D1099_08330	COG1755	Isoprenylcysteine carboxyl methyltransferase
D1099_08340	COG1530	ribonuclease E activity
D1099_08355	COG2249	NAD(P)H dehydrogenase (quinone) activity
D1099_08360	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
D1099_08370	COG0243	molybdopterin cofactor binding
D1099_08375	COG0437	4 iron, 4 sulfur cluster binding
D1099_08380	COG0348	domain, Protein
D1099_08385	COG3043	anaerobic respiration
D1099_08390	COG3005	denitrification pathway
D1099_08400	COG2050	protein possibly involved in aromatic compounds catabolism
D1099_08405	COG0247	lactate metabolic process
D1099_08405	COG0277	FAD linked oxidase domain protein
D1099_08415	COG1879	ABC-type sugar transport system periplasmic component
D1099_08420	COG1129	ABC transporter
D1099_08425	COG4211	Belongs to the binding-protein-dependent transport system permease family
D1099_08450	COG1022	Amp-dependent synthetase and ligase
D1099_08455	COG4989	oxidoreductase activity
D1099_08460	COG3691	Protein conserved in bacteria
D1099_08465	COG0814	amino acid
D1099_08475	COG2918	glutathione biosynthetic process
D1099_08475	COG1181	Belongs to the D-alanine--D-alanine ligase family
D1099_08485	COG4974	Belongs to the 'phage' integrase family
D1099_08490	COG0732	type I restriction modification DNA specificity domain
D1099_08515	COG1555	photosystem II stabilization
D1099_08520	COG3266	domain, Protein
D1099_08520	COG3061	Opacity-associated protein A
D1099_08530	COG0859	PFAM glycosyl transferase family 9
D1099_08535	COG0859	PFAM glycosyl transferase family 9
D1099_08540	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
D1099_08545	COG0049	tRNA binding
D1099_08550	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
D1099_08555	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
D1099_08580	COG0825	malonyl-CoA metabolic process
D1099_08590	COG0204	Acyl-transferase
D1099_08595	COG2077	Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides
D1099_08620	COG0783	Belongs to the Dps family
D1099_08635	COG1289	transmembrane transporter activity
D1099_08640	COG1803	Methylglyoxal synthase
D1099_08645	COG0498	Catalyzes the gamma-elimination of phosphate from L- phosphohomoserine and the beta-addition of water to produce L- threonine
D1099_08655	COG0525	valine-tRNA ligase activity
D1099_08670	COG2153	protein acetylation
D1099_08675	COG2927	DNA polymerase III (CHI subunit)
D1099_08680	COG1652	LysM domain
D1099_08690	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
D1099_08700	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
D1099_08705	COG1045	serine acetyltransferase
D1099_08710	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
D1099_08740	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
D1099_08755	COG0521	Mo-molybdopterin cofactor biosynthetic process
D1099_08765	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
D1099_08775	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
D1099_08790	COG0625	glutathione transferase activity
D1099_08795	COG0019	diaminopimelate decarboxylase activity
D1099_08805	COG3080	Seems to be involved in the anchoring of the catalytic components of the fumarate reductase complex to the cytoplasmic membrane
D1099_08810	COG3029	Seems to be involved in the anchoring of the catalytic components of the fumarate reductase complex to the cytoplasmic membrane
D1099_08815	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
D1099_08820	COG1053	succinate dehydrogenase
D1099_08825	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
D1099_08830	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
D1099_08835	COG2704	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane
D1099_08840	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
D1099_08850	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
D1099_08860	COG2264	protein methyltransferase activity
D1099_08880	COG0037	tRNA processing
D1099_08890	COG4974	Belongs to the 'phage' integrase family
D1099_08935	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
D1099_08945	COG2820	Catalyzes the reversible phosphorylytic cleavage of uridine and deoxyuridine to uracil and ribose- or deoxyribose-1- phosphate. The produced molecules are then utilized as carbon and energy sources or in the rescue of pyrimidine bases for nucleotide synthesis
D1099_08950	COG1522	sequence-specific DNA binding
D1099_08955	COG2502	aspartate--ammonia ligase
D1099_08980	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
D1099_08990	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
D1099_08995	COG1595	DNA-templated transcription, initiation
D1099_09020	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)
D1099_09030	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
D1099_09035	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
D1099_09040	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
D1099_09045	COG0257	Belongs to the bacterial ribosomal protein bL36 family
D1099_09050	COG0254	rRNA binding
D1099_09055	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
D1099_09060	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
D1099_09080	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
D1099_09085	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
D1099_09090	COG0470	DNA polymerase III
D1099_09100	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
D1099_09115	COG0084	hydrolase, TatD family'
D1099_09125	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
D1099_09130	COG1215	transferase activity, transferring glycosyl groups
D1099_09160	COG2852	Protein conserved in bacteria
D1099_09205	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
D1099_09210	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
D1099_09215	COG2850	peptidyl-arginine hydroxylation
D1099_09220	COG0335	large ribosomal subunit rRNA binding
D1099_09225	COG0336	Belongs to the RNA methyltransferase TrmD family
D1099_09230	COG0806	An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes
D1099_09235	COG0228	four-way junction DNA binding
D1099_09245	COG0202	RNA polymerase activity
D1099_09250	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
D1099_09255	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
D1099_09260	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
D1099_09270	COG0201	protein transport
D1099_09275	COG0200	Binds to the 23S rRNA
D1099_09280	COG1841	ribosomal large subunit assembly
D1099_09285	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
D1099_09290	COG0256	This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance
D1099_09295	COG0097	This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7 L12 stalk, and near the tRNA binding site of the peptidyltransferase center
D1099_09300	COG0096	One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
D1099_09305	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
D1099_09310	COG0094	This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits
D1099_09315	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
D1099_09325	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
D1099_09330	COG0255	Belongs to the universal ribosomal protein uL29 family
D1099_09335	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
D1099_09340	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
D1099_09345	COG0091	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
D1099_09350	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
D1099_09355	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
D1099_09360	COG0089	rRNA binding
D1099_09365	COG0088	Forms part of the polypeptide exit tunnel
D1099_09370	COG0087	One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit
D1099_09375	COG0051	transcription antitermination factor activity, RNA binding
D1099_09390	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
D1099_09395	COG0363	glucosamine-6-phosphate deaminase activity
D1099_09400	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
D1099_09410	COG3010	Converts N-acetylmannosamine-6-phosphate (ManNAc-6-P) to N-acetylglucosamine-6-phosphate (GlcNAc-6-P)
D1099_09420	COG1165	Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate (SEPHCHC)
D1099_09425	COG2267	carboxylic ester hydrolase activity
D1099_09435	COG0606	chelatase, subunit chli
D1099_09440	COG3636	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
D1099_09445	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
D1099_09450	COG0737	Belongs to the 5'-nucleotidase family
D1099_09455	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
D1099_09505	COG0305	Participates in initiation and elongation during chromosome replication
D1099_09535	COG0741	lytic transglycosylase activity
D1099_09540	COG2924	Could be a mediator in iron transactions between iron acquisition and iron-requiring processes, such as synthesis and or repair of Fe-S clusters in biosynthetic enzymes
D1099_09545	COG1194	a g-specific adenine glycosylase
D1099_09550	COG0346	lactoylglutathione lyase activity
D1099_09560	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
D1099_09565	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
D1099_09585	COG1487	ribonuclease activity
D1099_09615	COG0085	RNA polymerase activity
D1099_09650	COG0222	ribosome binding
D1099_09655	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
D1099_09660	COG0081	regulation of translation
D1099_09665	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
D1099_09675	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
D1099_09690	COG1297	OPT oligopeptide transporter protein
D1099_09695	COG0758	DNA mediated transformation
D1099_09705	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
D1099_09730	COG0545	Peptidyl-prolyl cis-trans isomerase
D1099_09735	COG0235	Class ii aldolase
D1099_09740	COG3623	hexulose-6-phosphate isomerase
D1099_09765	COG0269	3-dehydro-L-gulonate-6-phosphate decarboxylase activity
D1099_09785	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
D1099_09790	COG1126	abc transporter atp-binding protein
D1099_09800	COG0765	amino acid transport
D1099_09805	COG3477	response to acidic pH
D1099_09810	COG1454	alcohol dehydrogenase
D1099_09815	COG0738	Major facilitator superfamily
D1099_09820	COG0235	Class ii aldolase
D1099_09825	COG4154	Belongs to the RbsD FucU family
D1099_09830	COG1070	Carbohydrate kinase
D1099_09835	COG2407	Converts the aldose L-fucose into the corresponding ketose L-fuculose
D1099_09840	COG1349	DNA-binding transcription factor activity
D1099_09870	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
D1099_09870	COG2221	Nitrite and sulphite reductase 4Fe-4S
D1099_09875	COG3381	protein complex oligomerization
D1099_09880	COG3302	dmso reductase anchor subunit
D1099_09885	COG0437	4 iron, 4 sulfur cluster binding
D1099_09890	COG0243	molybdopterin cofactor binding
D1099_09895	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
D1099_09900	COG1879	ABC-type sugar transport system periplasmic component
D1099_09905	COG1172	Belongs to the binding-protein-dependent transport system permease family
D1099_09925	COG1609	Transcriptional regulator
D1099_09930	COG3265	gluconokinase activity
D1099_09935	COG2610	gluconate transmembrane transporter activity
D1099_09940	COG3444	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity
D1099_09940	COG2893	phosphoenolpyruvate-dependent sugar phosphotransferase system
D1099_09945	COG3715	PTS system
D1099_09950	COG3716	PTS system mannose fructose sorbose family IID component
D1099_09960	COG3012	SEC-C Motif Domain Protein
D1099_09965	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
D1099_09970	COG0561	phosphatase activity
D1099_09975	COG0445	tRNA wobble uridine modification
D1099_10005	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
D1099_10015	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
D1099_10020	COG0055	Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits
D1099_10050	COG2168	tRNA wobble position uridine thiolation
D1099_10060	COG1553	Part of a sulfur-relay system required for 2-thiolation of 5-methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. Accepts sulfur from TusA and transfers it in turn to TusE
D1099_10065	COG2964	Protein conserved in bacteria
D1099_10070	COG0545	Peptidyl-prolyl cis-trans isomerase
D1099_10075	COG2900	Belongs to the SlyX family
D1099_10080	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
D1099_10085	COG0775	Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively
D1099_10095	COG3914	O-linked N-acetylglucosamine transferase SPINDLY family
D1099_10110	COG1349	DNA-binding transcription factor activity
D1099_10115	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
D1099_10130	COG3722	fumarate hydratase activity
D1099_10135	COG0471	metal ion transport
D1099_10135	COG0490	domain, Protein
D1099_10145	COG0583	DNA-binding transcription factor activity
D1099_10150	COG5266	PFAM Nickel transport complex, NikM subunit, transmembrane
D1099_10155	COG0310	cobalt ion transport
D1099_10160	COG0310	cobalt ion transport
D1099_10165	COG0619	Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates
D1099_10170	COG1122	ATPase activity
D1099_10180	COG0831	urea catabolic process
D1099_10230	COG3691	Protein conserved in bacteria
D1099_10240	COG2846	Di-iron-containing protein involved in the repair of iron-sulfur clusters
D1099_10245	COG3681	Belongs to the UPF0597 family
D1099_10250	COG0765	amino acid transport
D1099_10255	COG1126	abc transporter atp-binding protein
D1099_10265	COG0799	negative regulation of ribosome biogenesis
D1099_10270	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
D1099_10275	COG0768	penicillin binding
D1099_10280	COG0772	Belongs to the SEDS family
D1099_10285	COG0797	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
D1099_10290	COG1686	Belongs to the peptidase S11 family
D1099_10295	COG2921	Belongs to the UPF0250 family
D1099_10300	COG0321	lipoyl(octanoyl) transferase activity
D1099_10305	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
D1099_10310	COG1970	mechanosensitive ion channel activity
D1099_10315	COG4635	menaquinone-dependent protoporphyrinogen oxidase activity
D1099_10320	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
D1099_10325	COG1739	Uncharacterized protein family UPF0029
D1099_10370	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
D1099_10380	COG1887	Glycosyl glycerophosphate transferases involved in teichoic acid biosynthesis TagF TagB EpsJ RodC
D1099_10385	COG1216	Glycosyl transferase, family 2
D1099_10420	COG3545	Serine hydrolase
D1099_10425	COG2055	Belongs to the LDH2 MDH2 oxidoreductase family
D1099_10435	COG2431	L-lysine efflux transmembrane transporter activity
D1099_10460	COG4771	TonB-dependent receptor
D1099_10460	COG1629	transport
D1099_10480	COG0716	FMN binding
D1099_10495	COG3276	selenocysteine insertion sequence binding
D1099_10500	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
D1099_10505	COG0569	domain protein
D1099_10510	COG0268	Binds directly to 16S ribosomal RNA
D1099_10515	COG0728	peptidoglycan biosynthetic process
D1099_10535	COG3765	Modulates the polysaccharide chain length of enterobacterial common antigen (ECA)
D1099_10540	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
D1099_10545	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
D1099_10555	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
D1099_10560	COG2244	polysaccharide biosynthetic process
D1099_10565	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
D1099_10570	COG1151	hydroxylamine reductase activity
D1099_10585	COG1922	lipopolysaccharide N-acetylmannosaminouronosyltransferase activity
D1099_10660	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
D1099_10670	COG4208	sulfate ABC transporter
D1099_10675	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
D1099_10680	COG1304	FMN binding
D1099_10690	COG0812	UDP-N-acetylmuramate dehydrogenase activity
D1099_10700	COG0059	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate
D1099_10705	COG2995	paraquat-inducible protein a
D1099_10710	COG1305	Transglutaminase-like
D1099_10720	COG2608	mercury ion transmembrane transporter activity
D1099_10725	COG1979	alcohol dehydrogenase
D1099_10730	COG0583	DNA-binding transcription factor activity
D1099_10740	COG2171	N-acyltransferase activity
D1099_10745	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
D1099_10755	COG0511	ligase activity, forming carbon-carbon bonds
D1099_10760	COG0439	Biotin carboxylase
D1099_10770	COG3084	Protein conserved in bacteria
D1099_10775	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
D1099_10785	COG3087	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
D1099_10785	COG3087	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides
D1099_10795	COG1876	peptidase activity
D1099_10805	COG1393	Belongs to the ArsC family
D1099_10815	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
D1099_10820	COG0564	pseudouridine synthase activity
D1099_10830	COG0668	transmembrane transport
D1099_10835	COG0439	Biotin carboxylase
D1099_10845	COG1025	Belongs to the peptidase M16 family
D1099_10850	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
D1099_10875	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
D1099_10880	COG1067	ATP-dependent peptidase activity
D1099_10885	COG3120	sequence-specific DNA binding
D1099_10890	COG0180	Tryptophanyl-tRNA synthetase
D1099_10910	COG0730	response to heat
D1099_10925	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
D1099_10935	COG0684	Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions
D1099_10940	COG2116	formate transmembrane transporter activity
D1099_10970	COG1070	Carbohydrate kinase
D1099_10975	COG2115	Belongs to the xylose isomerase family
D1099_10980	COG4213	ABC transporter substrate-binding protein
D1099_10985	COG1129	ABC transporter
D1099_10990	COG4214	carbohydrate transport
D1099_10995	COG1609	Transcriptional regulator
D1099_10995	COG2207	Transcriptional regulator
D1099_11000	COG3590	peptidase
D1099_11010	COG4145	pantothenate transmembrane transporter activity
D1099_11015	COG3924	membrane
D1099_11020	COG3060	This regulatory protein, when combined with SAM (S- adenosylmethionine) represses the expression of the methionine regulon and of enzymes involved in SAM synthesis
D1099_11025	COG2853	Lipoprotein
D1099_11030	COG0676	glucose-6-phosphate 1-epimerase activity
D1099_11045	COG1649	PFAM Uncharacterised BCR, COG1649
D1099_11045	COG0726	polysaccharide deacetylase
D1099_11050	COG1215	transferase activity, transferring glycosyl groups
D1099_11060	COG0149	triose-phosphate isomerase activity
D1099_11070	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
D1099_11075	COG1238	metal cluster binding
D1099_11090	COG1388	LysM domain
D1099_11090	COG4942	peptidase
D1099_11095	COG2818	Glycosylase
D1099_11105	COG0700	Nucleoside recognition
D1099_11110	COG3366	ferrous iron transmembrane transporter activity
D1099_11115	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
D1099_11120	COG0230	Belongs to the bacterial ribosomal protein bL34 family
D1099_11125	COG0594	ribonuclease P activity
D1099_11130	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
D1099_11135	COG0174	glutamine synthetase
D1099_11140	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
D1099_11145	COG0494	nUDIX hydrolase
D1099_11175	COG1490	D-aminoacyl-tRNA deacylase activity
D1099_11180	COG1295	ribonuclease BN
D1099_11185	COG0014	Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate
D1099_11210	COG1064	alcohol dehydrogenase
D1099_11220	COG1923	regulation of RNA biosynthetic process
D1099_11225	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
D1099_11230	COG1611	Belongs to the LOG family
D1099_11235	COG1694	Mazg nucleotide pyrophosphohydrolase
D1099_11250	COG1309	transcriptional regulator
D1099_11255	COG0756	dUTP diphosphatase activity
D1099_11260	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
D1099_11265	COG2003	Belongs to the UPF0758 family
D1099_11270	COG0227	Belongs to the bacterial ribosomal protein bL28 family
D1099_11275	COG0267	Belongs to the bacterial ribosomal protein bL33 family
D1099_11285	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
D1099_11290	COG0076	glutamate decarboxylase activity
D1099_11295	COG0425	Belongs to the sulfur carrier protein TusA family
D1099_11300	COG2391	methyltransferase activity
D1099_11305	COG3085	chromosome segregation
D1099_11325	COG0598	Magnesium transport protein CorA
D1099_11330	COG2226	methyltransferase
D1099_11345	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
D1099_11350	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
D1099_11355	COG0805	protein transport
D1099_11375	COG1114	Component of the transport system for branched-chain amino acids
D1099_11380	COG1028	Short-chain dehydrogenase reductase Sdr
D1099_11385	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
D1099_11390	COG1636	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
D1099_11395	COG0142	geranyltranstransferase activity
D1099_11405	COG0431	NADPH-dependent FMN reductase
D1099_11410	COG2259	Doxx family
D1099_11415	COG0261	This protein binds to 23S rRNA in the presence of protein L20
D1099_11420	COG0211	Belongs to the bacterial ribosomal protein bL27 family
D1099_11425	COG0697	spore germination
D1099_11435	COG4783	chaperone-mediated protein folding
D1099_11445	COG1040	competence protein
D1099_11450	COG2813	Specifically methylates the guanine in position
D1099_11460	COG0456	acetyltransferase
D1099_11465	COG0513	Belongs to the DEAD box helicase family
D1099_11470	COG0259	pyridoxamine-phosphate oxidase activity
D1099_11475	COG0747	negative chemotaxis
D1099_11485	COG1584	GPR1 FUN34 yaaH family protein
D1099_11490	COG1120	ATPase activity
D1099_11500	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
D1099_11515	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
D1099_11520	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
D1099_11525	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
D1099_11530	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
D1099_11550	COG0118	IGPS catalyzes the conversion of PRFAR and glutamine to IGP, AICAR and glutamate. The HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of IGP and AICAR
D1099_11570	COG0140	phosphoribosyl-ATP diphosphatase activity
D1099_11570	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
D1099_11575	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
D1099_11580	COG0024	Methionine aminopeptidase
D1099_11595	COG1621	beta-fructofuranosidase activity
D1099_11600	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
D1099_11610	COG4591	ABC-type transport system involved in lipoprotein release permease component
D1099_11615	COG1136	(ABC) transporter
D1099_11620	COG4591	ABC-type transport system involved in lipoprotein release permease component
D1099_11625	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family