locus-tag	class	description
SD28_RS00010	COG0792	nuclease activity
SD28_RS00035	COG0299	Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate
SD28_RS00045	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
SD28_RS00050	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
SD28_RS00080	COG0586	Pfam SNARE associated Golgi protein
SD28_RS00125	COG0501	Belongs to the peptidase M48B family
SD28_RS00160	COG0730	response to heat
SD28_RS00175	COG0621	Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine
SD28_RS00215	COG1183	phosphatidylcholine synthase activity
SD28_RS00220	COG4401	Chorismate mutase type I
SD28_RS00250	COG0758	DNA mediated transformation
SD28_RS00295	COG2890	protein-(glutamine-N5) methyltransferase activity
SD28_RS00315	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
SD28_RS00320	COG2814	Major facilitator Superfamily
SD28_RS00345	COG0552	protein localization to endoplasmic reticulum
SD28_RS00365	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
SD28_RS00370	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
SD28_RS00375	COG1015	Phosphotransfer between the C1 and C5 carbon atoms of pentose
SD28_RS00385	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
SD28_RS00385	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
SD28_RS00430	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
SD28_RS00435	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
SD28_RS00480	COG0642	Histidine kinase
SD28_RS00485	COG1090	epimerase
SD28_RS00490	COG1271	oxidase subunit
SD28_RS00495	COG1294	oxidase, subunit
SD28_RS00520	COG0635	Involved in the biosynthesis of porphyrin-containing compound
SD28_RS00525	COG2252	PERMEase
SD28_RS00535	COG1051	belongs to the nudix hydrolase family
SD28_RS00560	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)
SD28_RS00570	COG0227	Belongs to the bacterial ribosomal protein bL28 family
SD28_RS00580	COG0850	regulation of cytokinetic process
SD28_RS00590	COG0851	Prevents the cell division inhibition by proteins MinC and MinD at internal division sites while permitting inhibition at polar sites. This ensures cell division at the proper site by restricting the formation of a division septum at the midpoint of the long axis of the cell
SD28_RS00595	COG1127	ABC transporter
SD28_RS00600	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
SD28_RS00605	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
SD28_RS00620	COG2066	Belongs to the glutaminase family
SD28_RS00630	COG3040	lipid binding
SD28_RS00635	COG0814	amino acid
SD28_RS00695	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
SD28_RS00735	COG0564	pseudouridine synthase activity
SD28_RS00735	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
SD28_RS00740	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
SD28_RS00765	COG0195	Participates in both transcription termination and antitermination
SD28_RS00765	COG2251	uridine kinase activity
SD28_RS00785	COG0606	chelatase, subunit chli
SD28_RS00805	COG3125	oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor
SD28_RS00815	COG0843	Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B
SD28_RS00830	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
SD28_RS00855	COG0567	Dehydrogenase, E1 component
SD28_RS00860	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
SD28_RS00865	COG1053	succinate dehydrogenase
SD28_RS00870	COG2142	Succinate dehydrogenase hydrophobic membrane anchor
SD28_RS00875	COG2009	succinate dehydrogenase
SD28_RS00885	COG2223	nitrite transmembrane transporter activity
SD28_RS00895	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
SD28_RS00905	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
SD28_RS00945	COG1984	allophanate hydrolase subunit 2
SD28_RS00950	COG1540	5-oxoprolinase (ATP-hydrolyzing) activity
SD28_RS00965	COG0589	response to stress
SD28_RS00970	COG0481	GTPase activity
SD28_RS00975	COG0482	sulfurtransferase activity
SD28_RS00985	COG0242	peptide deformylase activity
SD28_RS01000	COG0307	riboflavin synthase, alpha
SD28_RS01005	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
SD28_RS01005	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
SD28_RS01015	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)
SD28_RS01020	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
SD28_RS01025	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
SD28_RS01045	COG0280	phosphate acetyltransferase
SD28_RS01045	COG0857	belongs to the CobB CobQ family
SD28_RS01055	COG0629	single-stranded DNA binding
SD28_RS01060	COG2137	regulation of response to DNA damage stimulus
SD28_RS01065	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
SD28_RS01075	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
SD28_RS01085	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
SD28_RS01085	COG0616	signal peptide processing
SD28_RS01135	COG0134	indole-3-glycerol-phosphate synthase activity
SD28_RS01135	COG0135	phosphoribosylanthranilate isomerase activity
SD28_RS01140	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
SD28_RS01145	COG0531	amino acid
SD28_RS01155	COG0167	dihydroorotate dehydrogenase activity
SD28_RS01235	COG0287	Prephenate dehydrogenase
SD28_RS01235	COG1605	Chorismate mutase
SD28_RS01240	COG1490	D-aminoacyl-tRNA deacylase activity
SD28_RS01255	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
SD28_RS01290	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
SD28_RS01295	COG0488	(ABC) transporter
SD28_RS01310	COG0512	Glutamine amidotransferase of anthranilate synthase
SD28_RS01315	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
SD28_RS01340	COG0592	DNA-directed DNA polymerase activity
SD28_RS01355	COG0540	Belongs to the ATCase OTCase family
SD28_RS01360	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
SD28_RS01365	COG0505	Belongs to the CarA family
SD28_RS01380	COG0557	exoribonuclease II activity
SD28_RS01410	COG1116	anion transmembrane transporter activity
SD28_RS01425	COG0663	COG0663 Carbonic anhydrases acetyltransferases, isoleucine patch superfamily
SD28_RS01450	COG0762	integral membrane protein
SD28_RS01455	COG1872	DUF167
SD28_RS01465	COG0189	ligase activity
SD28_RS01470	COG2333	competence protein COMEC
SD28_RS01470	COG0658	competence protein
SD28_RS01505	COG0531	amino acid
SD28_RS01535	COG0814	amino acid
SD28_RS01545	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
SD28_RS01550	COG0531	amino acid
SD28_RS01555	COG4178	(ABC) transporter
SD28_RS01560	COG0173	Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp Asn)
SD28_RS01575	COG0574	Belongs to the PEP-utilizing enzyme family
SD28_RS01575	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)
SD28_RS01580	COG0370	Transporter of a GTP-driven Fe(2 ) uptake system
SD28_RS01600	COG1560	Kdo2-lipid A biosynthetic process
SD28_RS01605	COG1560	Kdo2-lipid A biosynthetic process
SD28_RS01610	COG0706	membrane insertase activity
SD28_RS01615	COG0594	ribonuclease P activity
SD28_RS01625	COG0814	amino acid
SD28_RS01630	COG0357	Ribosomal RNA small subunit methyltransferase G
SD28_RS01635	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
SD28_RS01645	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
SD28_RS01675	COG0542	response to heat
SD28_RS01705	COG0204	Acyl-transferase
SD28_RS01715	COG0009	L-threonylcarbamoyladenylate synthase
SD28_RS01755	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
SD28_RS01770	COG1055	Involved in arsenical resistance. Thought to form the channel of an arsenite pump
SD28_RS01775	COG2814	Major facilitator Superfamily
SD28_RS01790	COG0826	peptidase U32
SD28_RS01795	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
SD28_RS01800	COG1538	Outer membrane efflux protein
SD28_RS01810	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
SD28_RS01815	COG0047	phosphoribosylformylglycinamidine synthase activity
SD28_RS01815	COG0046	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
SD28_RS01820	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
SD28_RS01835	COG0721	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
SD28_RS01855	COG2814	Major facilitator Superfamily
SD28_RS01880	COG0076	glutamate decarboxylase activity
SD28_RS01890	COG0527	aspartate kinase activity
SD28_RS01940	COG4115	mRNA cleavage
SD28_RS01945	COG2161	toxin-antitoxin pair type II binding
SD28_RS01965	COG0838	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
SD28_RS01970	COG0377	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
SD28_RS01985	COG1905	PFAM NADH dehydrogenase (ubiquinone) 24 kDa subunit
SD28_RS01995	COG1034	ATP synthesis coupled electron transport
SD28_RS02005	COG1143	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
SD28_RS02010	COG0839	Belongs to the complex I subunit 6 family
SD28_RS02015	COG0713	ATP synthesis coupled electron transport
SD28_RS02055	COG2240	Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP
SD28_RS02065	COG0714	Associated with various cellular activities
SD28_RS02080	COG2304	oxidoreductase activity
SD28_RS02085	COG2304	oxidoreductase activity
SD28_RS02115	COG0525	valine-tRNA ligase activity
SD28_RS02130	COG0138	bifunctional purine biosynthesis protein purh
SD28_RS02140	COG0104	Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP
SD28_RS02155	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
SD28_RS02160	COG1108	ABC-type Mn2 Zn2 transport systems permease components
SD28_RS02165	COG3842	ATPase activity
SD28_RS02175	COG2814	Major facilitator Superfamily
SD28_RS02190	COG1295	ribonuclease BN
SD28_RS02200	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
SD28_RS02225	COG1294	oxidase, subunit
SD28_RS02230	COG1271	oxidase subunit
SD28_RS02235	COG2814	Major facilitator Superfamily
SD28_RS02240	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
SD28_RS02250	COG0052	Belongs to the universal ribosomal protein uS2 family
SD28_RS02270	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
SD28_RS02275	COG4589	Belongs to the CDS family
SD28_RS02280	COG0756	dUTP diphosphatase activity
SD28_RS02285	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
SD28_RS02295	COG0049	tRNA binding
SD28_RS02325	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
SD28_RS02330	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
SD28_RS02335	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
SD28_RS02345	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
SD28_RS02375	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
SD28_RS02410	COG0201	protein transport
SD28_RS02420	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
SD28_RS02460	COG0777	Component of the acetyl coenzyme A carboxylase (ACC) complex. Biotin carboxylase (BC) catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the transcarboxylase to acetyl-CoA to form malonyl- CoA
SD28_RS02465	COG0285	dihydrofolate synthase activity
SD28_RS02470	COG0802	atpase or kinase
SD28_RS02480	COG0728	peptidoglycan biosynthetic process
SD28_RS02485	COG2918	glutathione biosynthetic process
SD28_RS02495	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
SD28_RS02515	COG0210	DNA helicase
SD28_RS02535	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
SD28_RS02565	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
SD28_RS02575	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
SD28_RS02590	COG0081	regulation of translation
SD28_RS02595	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
SD28_RS02620	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
SD28_RS02630	COG0192	Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme
SD28_RS02655	COG4974	Belongs to the 'phage' integrase family
SD28_RS02690	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
SD28_RS02720	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
SD28_RS02740	COG1674	ftsk spoiiie
SD28_RS02750	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
SD28_RS02760	COG0833	amino acid
SD28_RS02765	COG2945	thiolester hydrolase activity
SD28_RS02770	COG1494	fructose-1,6-bisphosphatase
SD28_RS02775	COG0591	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
SD28_RS02815	COG2890	protein-(glutamine-N5) methyltransferase activity
SD28_RS02860	COG0084	hydrolase, TatD family'
SD28_RS02880	COG0730	response to heat
SD28_RS02885	COG1131	(ABC) transporter
SD28_RS02890	COG0842	Transport permease protein
SD28_RS02895	COG0463	Glycosyl transferase, family 2
SD28_RS02905	COG2996	Protein conserved in bacteria
SD28_RS02910	COG1280	lysine exporter protein (LysE YggA)
SD28_RS02915	COG0220	tRNA (guanine-N7-)-methyltransferase activity
SD28_RS02940	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
SD28_RS02955	COG2983	Belongs to the UPF0260 family
SD28_RS02970	COG0436	Aminotransferase
SD28_RS03005	COG2166	iron-sulfur cluster assembly
SD28_RS03115	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
SD28_RS03135	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
SD28_RS03140	COG0814	amino acid
SD28_RS03210	COG0237	dephospho-CoA kinase activity
SD28_RS03220	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
SD28_RS03230	COG0508	dehydrogenase complex catalyzes the overall conversion of
SD28_RS03235	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
SD28_RS03265	COG0302	gtp cyclohydrolase
SD28_RS03285	COG2814	Major facilitator Superfamily
SD28_RS03305	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
SD28_RS03305	COG0473	3-isopropylmalate dehydrogenase activity
SD28_RS03320	COG2814	Major facilitator Superfamily
SD28_RS03360	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
SD28_RS03400	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
SD28_RS03415	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
SD28_RS03425	COG0187	DNA topoisomerase II activity
SD28_RS03430	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
SD28_RS03435	COG0204	Acyl-transferase
SD28_RS03435	COG0318	PFAM AMP-dependent synthetase and ligase
SD28_RS03440	COG0275	rRNA processing
SD28_RS03445	COG3116	cell division
SD28_RS03455	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
SD28_RS03475	COG0572	uridine kinase
SD28_RS03515	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
SD28_RS03520	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
SD28_RS03525	COG0814	amino acid
SD28_RS03535	COG0156	8-amino-7-oxononanoate synthase activity
SD28_RS03580	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
SD28_RS03580	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
SD28_RS03585	COG0483	inositol monophosphate 1-phosphatase activity
SD28_RS03590	COG2855	membrane
SD28_RS03615	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
SD28_RS03625	COG1058	Belongs to the CinA family
SD28_RS03625	COG1546	Belongs to the CinA family
SD28_RS03630	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
SD28_RS03630	COG0189	ligase activity
SD28_RS03635	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
SD28_RS03635	COG1181	Belongs to the D-alanine--D-alanine ligase family
SD28_RS03655	COG1464	Belongs to the NlpA lipoprotein family
SD28_RS03705	COG1862	Preprotein translocase
SD28_RS03710	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
SD28_RS03715	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
SD28_RS03725	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
SD28_RS03745	COG0252	asparaginase activity
SD28_RS03750	COG0288	reversible hydration of carbon dioxide
SD28_RS03765	COG0740	serine-type endopeptidase activity
SD28_RS03770	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
SD28_RS03775	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
SD28_RS03790	COG0324	Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A)
SD28_RS03810	COG1923	regulation of RNA biosynthetic process
SD28_RS03815	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
SD28_RS03820	COG0330	HflC and HflK could
SD28_RS03825	COG0330	HflC and HflK could
SD28_RS03830	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
SD28_RS03840	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
SD28_RS03845	COG0346	lactoylglutathione lyase activity
SD28_RS03860	COG1611	Belongs to the LOG family
SD28_RS03870	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
SD28_RS03870	COG0517	IMP dehydrogenase activity
SD28_RS03875	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
SD28_RS03890	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
SD28_RS03900	COG1446	asparaginase
SD28_RS03940	COG1495	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein
SD28_RS03965	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
SD28_RS03995	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
SD28_RS04000	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
SD28_RS04005	COG0562	UDP-galactopyranose mutase
SD28_RS04010	COG2821	murein-degrading enzyme. may play a role in recycling of muropeptides during cell elongation and or cell division
SD28_RS04015	COG0576	Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ
SD28_RS04020	COG0443	Heat shock 70 kDa protein
SD28_RS04035	COG0156	8-amino-7-oxononanoate synthase activity
SD28_RS04045	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
SD28_RS04065	COG2814	Major facilitator Superfamily
SD28_RS04070	COG0318	PFAM AMP-dependent synthetase and ligase
SD28_RS04080	COG3104	oligopeptide transport
SD28_RS04085	COG1385	rRNA (uridine-N3-)-methyltransferase activity
SD28_RS04105	COG1127	ABC transporter
SD28_RS04110	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
SD28_RS04115	COG2992	FlgJ-related protein
SD28_RS04120	COG0564	pseudouridine synthase activity
SD28_RS04125	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
SD28_RS04150	COG0560	Phosphoserine phosphatase
SD28_RS04175	COG0531	amino acid
SD28_RS04180	COG1605	Chorismate mutase
SD28_RS04180	COG0077	Prephenate dehydratase
SD28_RS04190	COG1760	l-serine dehydratase
SD28_RS04195	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
SD28_RS04200	COG0316	Belongs to the HesB IscA family
SD28_RS04205	COG2151	metal-sulfur cluster biosynthetic enzyme
SD28_RS04210	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
SD28_RS04215	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
SD28_RS04240	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
SD28_RS04250	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
SD28_RS04265	COG0445	tRNA wobble uridine modification
SD28_RS04305	COG0556	nucleotide-excision repair
SD28_RS04310	COG2925	Exonuclease
SD28_RS04335	COG1137	ATPase activity
SD28_RS04340	COG0179	Fumarylacetoacetate (FAA) hydrolase
SD28_RS04345	COG0005	The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate
SD28_RS04360	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
SD28_RS04370	COG0095	Lipoate-protein ligase
SD28_RS04375	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)
SD28_RS04400	COG0223	Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus
SD28_RS04405	COG0189	ligase activity
SD28_RS04410	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
SD28_RS04420	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
SD28_RS04420	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
SD28_RS04435	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
SD28_RS04435	COG0512	Glutamine amidotransferase of anthranilate synthase
SD28_RS04440	COG0512	Glutamine amidotransferase of anthranilate synthase
SD28_RS04440	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
SD28_RS04450	COG0667	Aldo Keto reductase
SD28_RS04490	COG1610	YqeY-like protein
SD28_RS04495	COG0358	DNA primase activity
SD28_RS04515	COG0142	geranyltranstransferase activity
SD28_RS04545	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
SD28_RS04550	COG1210	Utp--glucose-1-phosphate uridylyltransferase
SD28_RS04555	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
SD28_RS04560	COG0697	spore germination
SD28_RS04565	COG0482	sulfurtransferase activity
SD28_RS04570	COG0425	Belongs to the sulfur carrier protein TusA family
SD28_RS04575	COG2835	tetraacyldisaccharide 4'-kinase activity
SD28_RS04590	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
SD28_RS04595	COG0513	Belongs to the DEAD box helicase family
SD28_RS04615	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
SD28_RS04615	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
SD28_RS04635	COG2814	Major facilitator Superfamily
SD28_RS04660	COG0156	8-amino-7-oxononanoate synthase activity
SD28_RS04665	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
SD28_RS04670	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
SD28_RS04680	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
SD28_RS04685	COG0207	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis
SD28_RS04690	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
SD28_RS04695	COG1530	ribonuclease E activity
SD28_RS04715	COG0586	Pfam SNARE associated Golgi protein
SD28_RS04720	COG0586	Pfam SNARE associated Golgi protein
SD28_RS04730	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
SD28_RS04740	COG0084	hydrolase, TatD family'
SD28_RS04745	COG0751	glycine-tRNA ligase activity
SD28_RS04750	COG2814	Major facilitator Superfamily
SD28_RS04755	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
SD28_RS04765	COG1322	Protein conserved in bacteria
SD28_RS04775	COG1335	isochorismatase
SD28_RS04785	COG0697	spore germination
SD28_RS04790	COG0354	folic acid binding
SD28_RS04795	COG0210	DNA helicase
SD28_RS04800	COG2814	Major facilitator Superfamily
SD28_RS04820	COG0659	secondary active sulfate transmembrane transporter activity
SD28_RS04840	COG2921	Belongs to the UPF0250 family
SD28_RS04845	COG1686	Belongs to the peptidase S11 family
SD28_RS04850	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
SD28_RS04880	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
SD28_RS04885	COG2867	negative regulation of translational initiation
SD28_RS04895	COG1943	Transposase
SD28_RS04910	COG1217	gtp-binding protein TYPA
SD28_RS04915	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
SD28_RS04920	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
SD28_RS04930	COG0730	response to heat
SD28_RS04950	COG0488	(ABC) transporter
SD28_RS04955	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
SD28_RS04965	COG0516	GMP reductase activity
SD28_RS04965	COG0517	IMP dehydrogenase activity
SD28_RS04990	COG0259	pyridoxamine-phosphate oxidase activity
SD28_RS05010	COG2814	Major facilitator Superfamily
SD28_RS05045	COG0799	negative regulation of ribosome biogenesis
SD28_RS05055	COG0210	DNA helicase
SD28_RS05065	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
SD28_RS05065	COG0678	peroxiredoxin activity
SD28_RS05070	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
SD28_RS05090	COG2941	Oxygenase that introduces the hydroxyl group at carbon five of 2-nonaprenyl-3-methyl-6-methoxy-1,4-benzoquinol resulting in the formation of 2-nonaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4- benzoquinol
SD28_RS05095	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
SD28_RS05100	COG0450	alkyl hydroperoxide reductase
SD28_RS05110	COG2824	Alkylphosphonate utilization operon protein PhnA
SD28_RS05115	COG0302	gtp cyclohydrolase
SD28_RS05120	COG0513	Belongs to the DEAD box helicase family
SD28_RS05140	COG1472	Belongs to the glycosyl hydrolase 3 family
SD28_RS05145	COG1028	Short-chain dehydrogenase reductase Sdr
SD28_RS05150	COG4689	acetoacetate decarboxylase
SD28_RS05160	COG1816	Catalyzes the hydrolytic deamination of adenine to hypoxanthine. Plays an important role in the purine salvage pathway and in nitrogen catabolism
SD28_RS05175	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)
SD28_RS05185	COG2255	four-way junction helicase activity
SD28_RS05205	COG2814	Major facilitator Superfamily
SD28_RS05210	COG1904	glucuronate isomerase
SD28_RS05215	COG0800	Aldolase
SD28_RS05230	COG0246	Mannitol dehydrogenase
SD28_RS05245	COG3104	oligopeptide transport
SD28_RS05250	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
SD28_RS05255	COG0708	Exodeoxyribonuclease III
SD28_RS05285	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
SD28_RS05285	COG0072	phenylalanine-tRNA ligase activity
SD28_RS05295	COG0489	protein tyrosine kinase activity
SD28_RS05305	COG0668	transmembrane transport
SD28_RS05325	COG1678	Uncharacterized ACR, COG1678
SD28_RS05355	COG0719	Fe-S assembly protein
SD28_RS05360	COG0396	ATPase activity
SD28_RS05365	COG0719	Fe-S assembly protein
SD28_RS05370	COG1959	2 iron, 2 sulfur cluster binding
SD28_RS05375	COG0569	domain protein
SD28_RS05380	COG0531	amino acid
SD28_RS05390	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
SD28_RS05425	COG0062	Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration
SD28_RS05425	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
SD28_RS05430	COG0386	Belongs to the glutathione peroxidase family
SD28_RS05435	COG0077	Prephenate dehydratase
SD28_RS05435	COG1605	Chorismate mutase
SD28_RS05445	COG2264	protein methyltransferase activity
SD28_RS05460	COG0415	Belongs to the DNA photolyase family
SD28_RS05465	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
SD28_RS05470	COG2814	Major facilitator Superfamily
SD28_RS05475	COG0531	amino acid
SD28_RS05485	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
SD28_RS05500	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
SD28_RS05530	COG0563	adenylate kinase activity
SD28_RS05535	COG0277	FAD linked oxidase domain protein
SD28_RS05550	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
SD28_RS05555	COG0436	Aminotransferase
SD28_RS05560	COG1214	PFAM Peptidase M22, glycoprotease
SD28_RS05570	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
SD28_RS05590	COG4122	O-methyltransferase activity
SD28_RS05600	COG1702	phosphate starvation-inducible protein PhoH
SD28_RS05610	COG4535	Mg2 and Co2 transporter CorC
SD28_RS05615	COG0815	Transfers the fatty acyl group on membrane lipoproteins
SD28_RS05630	COG0561	phosphatase activity
SD28_RS05645	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
SD28_RS05650	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
SD28_RS05655	COG3079	Belongs to the UPF0149 family
SD28_RS05680	COG1496	oxidoreductase activity
SD28_RS05710	COG2814	Major facilitator Superfamily
SD28_RS05715	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
SD28_RS05720	COG1823	symporter activity
SD28_RS05730	COG4536	flavin adenine dinucleotide binding
SD28_RS05740	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)
SD28_RS05760	COG1187	pseudouridine synthase activity
SD28_RS05780	COG0359	binds to the 23S rRNA
SD28_RS05785	COG0238	Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
SD28_RS05790	COG0360	Binds together with S18 to 16S ribosomal RNA
SD28_RS05795	COG0408	coproporphyrinogen oxidase activity
SD28_RS05810	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
SD28_RS05845	COG0037	tRNA processing
SD28_RS05885	COG4988	ABC transporter
SD28_RS05890	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
SD28_RS05895	COG1301	dicarboxylic acid transport
SD28_RS05900	COG0251	oxidation-reduction process
SD28_RS05905	COG2271	Major facilitator Superfamily
SD28_RS05915	COG4572	Cation transport regulator
SD28_RS05920	COG1028	Short-chain dehydrogenase reductase Sdr
SD28_RS05930	COG0232	Belongs to the dGTPase family. Type 2 subfamily
SD28_RS05955	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
SD28_RS05965	COG0488	(ABC) transporter
SD28_RS05980	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
SD28_RS05985	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
SD28_RS06005	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
SD28_RS06015	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)
SD28_RS06020	COG1866	Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA
SD28_RS06025	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
SD28_RS06030	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
SD28_RS06035	COG1028	Short-chain dehydrogenase reductase Sdr
SD28_RS06040	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
SD28_RS06055	COG0333	Belongs to the bacterial ribosomal protein bL32 family
SD28_RS06075	COG0126	phosphoglycerate kinase activity
SD28_RS06080	COG0469	pyruvate kinase activity
SD28_RS06085	COG0191	fructose-bisphosphate aldolase activity
SD28_RS06105	COG3842	ATPase activity
SD28_RS06110	COG1176	ABC-type spermidine putrescine transport system, permease component I
SD28_RS06115	COG1177	transmembrane transport
SD28_RS06150	COG0813	purine-nucleoside phosphorylase activity
SD28_RS06160	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
SD28_RS06165	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
SD28_RS06190	COG0516	GMP reductase activity
SD28_RS06190	COG0517	IMP dehydrogenase activity
SD28_RS06195	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
SD28_RS06200	COG0795	lipopolysaccharide-transporting ATPase activity
SD28_RS06205	COG0795	lipopolysaccharide-transporting ATPase activity
SD28_RS06210	COG0612	Peptidase, M16
SD28_RS06220	COG0742	ribosomal rna small subunit methyltransferase
SD28_RS06225	COG2860	membrane
SD28_RS06235	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
SD28_RS06240	COG0295	cytidine deaminase activity
SD28_RS06245	COG1278	Cold shock
SD28_RS06255	COG0247	lactate metabolic process
SD28_RS06255	COG0277	FAD linked oxidase domain protein
SD28_RS06260	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
SD28_RS06270	COG0497	DNA recombination
SD28_RS06280	COG0436	Aminotransferase
SD28_RS06285	COG1940	carbohydrate kinase activity
SD28_RS06305	COG1773	rubredoxin
SD28_RS06310	COG2515	1-aminocyclopropane-1-carboxylate deaminase
SD28_RS06320	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
SD28_RS06325	COG1989	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue
SD28_RS06345	COG0012	GTP binding
SD28_RS06360	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
SD28_RS06370	COG0509	glycine decarboxylation via glycine cleavage system
SD28_RS06375	COG0404	The glycine cleavage system catalyzes the degradation of glycine
SD28_RS06380	COG1982	Orn Lys Arg decarboxylase major
SD28_RS06420	COG0587	DNA-directed DNA polymerase activity
SD28_RS06430	COG4623	carbon-oxygen lyase activity, acting on polysaccharides
SD28_RS06440	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
SD28_RS06445	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
SD28_RS06455	COG0024	Methionine aminopeptidase
SD28_RS06465	COG0509	glycine decarboxylation via glycine cleavage system
SD28_RS06480	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
SD28_RS06485	COG0475	glutathione-regulated potassium exporter activity
SD28_RS06485	COG0589	response to stress
SD28_RS06490	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
SD28_RS06515	COG1509	lysine 2,3-aminomutase activity
SD28_RS06545	COG3155	Displays glyoxalase activity, catalyzing the conversion of glyoxal to glycolate
SD28_RS06560	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
SD28_RS06570	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
SD28_RS06590	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
SD28_RS06595	COG2878	Part of a membrane complex involved in electron transport
SD28_RS06600	COG2999	glutathione oxidoreductase activity
SD28_RS06625	COG0110	maltose O-acetyltransferase activity
SD28_RS06640	COG1089	Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
SD28_RS06690	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
SD28_RS06695	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
SD28_RS06715	COG0110	maltose O-acetyltransferase activity
SD28_RS06730	COG2089	acid synthase
SD28_RS06740	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
SD28_RS06750	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
SD28_RS06760	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
SD28_RS06765	COG1086	Polysaccharide biosynthesis protein
SD28_RS06785	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
SD28_RS06795	COG1086	Polysaccharide biosynthesis protein
SD28_RS06800	COG1643	Atp-dependent helicase
SD28_RS06815	COG1393	Belongs to the ArsC family
SD28_RS06820	COG0318	PFAM AMP-dependent synthetase and ligase
SD28_RS06825	COG1960	acyl-CoA dehydrogenase activity
SD28_RS06830	COG1024	Enoyl-CoA hydratase
SD28_RS06830	COG1250	3-hydroxyacyl-CoA dehydrogenase
SD28_RS06835	COG0183	Belongs to the thiolase family
SD28_RS06850	COG0010	Belongs to the arginase family
SD28_RS06865	COG0745	RESPONSE REGULATOR receiver
SD28_RS06870	COG5002	protein histidine kinase activity
SD28_RS06885	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
SD28_RS06905	COG0557	exoribonuclease II activity
SD28_RS06915	COG0571	ribonuclease III activity
SD28_RS06920	COG0681	Belongs to the peptidase S26 family
SD28_RS06930	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
SD28_RS06935	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
SD28_RS06940	COG1519	Transferase
SD28_RS06945	COG0142	geranyltranstransferase activity
SD28_RS06950	COG1183	phosphatidylcholine synthase activity
SD28_RS06990	COG0492	ferredoxin-NADP+ reductase activity
SD28_RS07000	COG0323	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a molecular matchmaker , a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
SD28_RS07025	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
SD28_RS07035	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
SD28_RS07040	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
SD28_RS07045	COG0511	ligase activity, forming carbon-carbon bonds
SD28_RS07050	COG0439	Biotin carboxylase
SD28_RS07075	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
SD28_RS07095	COG2852	Protein conserved in bacteria
SD28_RS07130	COG0531	amino acid
SD28_RS07135	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
SD28_RS07150	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
SD28_RS07155	COG0113	porphobilinogen synthase activity
SD28_RS07165	COG0470	DNA polymerase III
SD28_RS07170	COG0616	signal peptide processing
SD28_RS07175	COG0625	glutathione transferase activity
SD28_RS07180	COG2920	part of a sulfur-relay system
SD28_RS07185	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
SD28_RS07190	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
SD28_RS07195	COG0671	phosphoesterase, PA-phosphatase related
SD28_RS07205	COG0772	Belongs to the SEDS family
SD28_RS07225	COG1278	Cold shock
SD28_RS07300	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
SD28_RS07310	COG1051	belongs to the nudix hydrolase family
SD28_RS07310	COG1056	cytidyltransferase-related domain
SD28_RS07320	COG0688	phosphatidylethanolamine metabolic process
SD28_RS07330	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
SD28_RS07335	COG1074	ATP-dependent DNA helicase activity
SD28_RS07340	COG1994	Peptidase M50
SD28_RS07360	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
SD28_RS07370	COG0814	amino acid
SD28_RS07400	COG0531	amino acid
SD28_RS07405	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
SD28_RS07410	COG2081	HI0933 family
SD28_RS07420	COG0300	oxidoreductase activity
SD28_RS07425	COG1252	NADH dehydrogenase
SD28_RS07435	COG0459	protein refolding
SD28_RS07440	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
SD28_RS07465	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
SD28_RS07470	COG0248	Ppx GppA phosphatase
SD28_RS07550	COG0009	L-threonylcarbamoyladenylate synthase
SD28_RS07565	COG0837	glucose binding
SD28_RS07570	COG2226	methyltransferase
SD28_RS07580	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
SD28_RS07585	COG0537	adenosine 5'-monophosphoramidase activity
SD28_RS07590	COG1040	competence protein
SD28_RS07595	COG2226	methyltransferase
SD28_RS07605	COG0812	UDP-N-acetylmuramate dehydrogenase activity
SD28_RS07610	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
SD28_RS07640	COG0281	malic enzyme
SD28_RS07645	COG0196	riboflavin kinase activity
SD28_RS07650	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)
SD28_RS07665	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
SD28_RS07675	COG0519	Catalyzes the synthesis of GMP from XMP
SD28_RS07675	COG0518	GMP synthase (glutamine-hydrolyzing) activity
SD28_RS07680	COG1475	DNA binding
SD28_RS07685	COG1192	Involved in chromosome partitioning