-- dump date 20140619_135325 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1249526000001 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1249526000002 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1249526000003 active site 1249526000004 homodimer interface [polypeptide binding]; other site 1249526000005 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1249526000006 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1249526000007 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1249526000008 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1249526000009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1249526000010 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1249526000011 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249526000012 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1249526000013 active site 1249526000014 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 1249526000015 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1249526000016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1249526000017 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1249526000018 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1249526000019 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1249526000020 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1249526000021 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1249526000022 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1249526000023 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1249526000024 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1249526000025 Walker A/P-loop; other site 1249526000026 ATP binding site [chemical binding]; other site 1249526000027 Q-loop/lid; other site 1249526000028 ABC transporter signature motif; other site 1249526000029 Walker B; other site 1249526000030 D-loop; other site 1249526000031 H-loop/switch region; other site 1249526000032 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1249526000033 putative metal binding site [ion binding]; other site 1249526000034 hypothetical protein; Provisional; Region: PRK01752 1249526000035 SEC-C motif; Region: SEC-C; pfam02810 1249526000036 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1249526000037 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1249526000038 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1249526000039 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1249526000040 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1249526000041 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526000042 S-adenosylmethionine binding site [chemical binding]; other site 1249526000043 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1249526000044 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1249526000045 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1249526000046 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1249526000047 inhibitor binding site; inhibition site 1249526000048 active site 1249526000049 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 1249526000050 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1249526000051 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1249526000052 active site 1249526000053 catalytic tetrad [active] 1249526000054 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526000055 putative substrate translocation pore; other site 1249526000056 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1249526000057 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1249526000058 active site 1249526000059 catalytic site [active] 1249526000060 metal binding site [ion binding]; metal-binding site 1249526000061 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1249526000062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526000063 putative substrate translocation pore; other site 1249526000064 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526000065 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1249526000066 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1249526000067 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1249526000068 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1249526000069 putative N- and C-terminal domain interface [polypeptide binding]; other site 1249526000070 putative active site [active] 1249526000071 MgATP binding site [chemical binding]; other site 1249526000072 catalytic site [active] 1249526000073 metal binding site [ion binding]; metal-binding site 1249526000074 putative xylulose binding site [chemical binding]; other site 1249526000075 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1249526000076 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249526000077 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249526000078 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526000079 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526000080 TM-ABC transporter signature motif; other site 1249526000081 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249526000082 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249526000083 Walker A/P-loop; other site 1249526000084 ATP binding site [chemical binding]; other site 1249526000085 Q-loop/lid; other site 1249526000086 ABC transporter signature motif; other site 1249526000087 Walker B; other site 1249526000088 D-loop; other site 1249526000089 H-loop/switch region; other site 1249526000090 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249526000091 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1249526000092 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1249526000093 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1249526000094 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1249526000095 DctM-like transporters; Region: DctM; pfam06808 1249526000096 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1249526000097 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1249526000098 Domain of unknown function (DUF386); Region: DUF386; pfam04074 1249526000099 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1249526000100 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1249526000101 substrate binding site [chemical binding]; other site 1249526000102 Mn binding site [ion binding]; other site 1249526000103 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1249526000104 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249526000105 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1249526000106 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1249526000107 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249526000108 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249526000109 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1249526000110 IMP binding site; other site 1249526000111 dimer interface [polypeptide binding]; other site 1249526000112 interdomain contacts; other site 1249526000113 partial ornithine binding site; other site 1249526000114 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1249526000115 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1249526000116 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1249526000117 catalytic site [active] 1249526000118 subunit interface [polypeptide binding]; other site 1249526000119 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 1249526000120 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1249526000121 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1249526000122 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1249526000123 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1249526000124 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1249526000125 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1249526000126 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1249526000127 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1249526000128 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249526000129 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1249526000130 beta subunit interaction interface [polypeptide binding]; other site 1249526000131 Walker A motif; other site 1249526000132 ATP binding site [chemical binding]; other site 1249526000133 Walker B motif; other site 1249526000134 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249526000135 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1249526000136 core domain interface [polypeptide binding]; other site 1249526000137 delta subunit interface [polypeptide binding]; other site 1249526000138 epsilon subunit interface [polypeptide binding]; other site 1249526000139 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1249526000140 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1249526000141 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1249526000142 alpha subunit interaction interface [polypeptide binding]; other site 1249526000143 Walker A motif; other site 1249526000144 ATP binding site [chemical binding]; other site 1249526000145 Walker B motif; other site 1249526000146 inhibitor binding site; inhibition site 1249526000147 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1249526000148 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1249526000149 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1249526000150 gamma subunit interface [polypeptide binding]; other site 1249526000151 epsilon subunit interface [polypeptide binding]; other site 1249526000152 LBP interface [polypeptide binding]; other site 1249526000153 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1249526000154 dimer interface [polypeptide binding]; other site 1249526000155 active site 1249526000156 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1249526000157 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1249526000158 dimerization interface [polypeptide binding]; other site 1249526000159 putative DNA binding site [nucleotide binding]; other site 1249526000160 putative Zn2+ binding site [ion binding]; other site 1249526000161 AsnC family; Region: AsnC_trans_reg; pfam01037 1249526000162 FMN-binding protein MioC; Provisional; Region: PRK09004 1249526000163 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526000164 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249526000165 peptide binding site [polypeptide binding]; other site 1249526000166 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1249526000167 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 1249526000168 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1249526000169 Phage tail tube protein; Region: Tail_tube; pfam10618 1249526000170 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1249526000171 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1249526000172 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1249526000173 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526000174 sequence-specific DNA binding site [nucleotide binding]; other site 1249526000175 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249526000176 salt bridge; other site 1249526000177 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1249526000178 Catalytic site [active] 1249526000179 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1249526000180 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1249526000181 inhibitor site; inhibition site 1249526000182 active site 1249526000183 dimer interface [polypeptide binding]; other site 1249526000184 catalytic residue [active] 1249526000185 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1249526000186 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249526000187 nucleotide binding site [chemical binding]; other site 1249526000188 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1249526000189 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1249526000190 putative active site cavity [active] 1249526000191 selenocysteine synthase; Provisional; Region: PRK04311 1249526000192 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1249526000193 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1249526000194 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249526000195 catalytic residue [active] 1249526000196 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1249526000197 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1249526000198 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1249526000199 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1249526000200 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1249526000201 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1249526000202 G1 box; other site 1249526000203 putative GEF interaction site [polypeptide binding]; other site 1249526000204 GTP/Mg2+ binding site [chemical binding]; other site 1249526000205 Switch I region; other site 1249526000206 G2 box; other site 1249526000207 G3 box; other site 1249526000208 Switch II region; other site 1249526000209 G4 box; other site 1249526000210 G5 box; other site 1249526000211 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1249526000212 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1249526000213 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1249526000214 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1249526000215 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1249526000216 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1249526000217 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1249526000218 DctM-like transporters; Region: DctM; pfam06808 1249526000219 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1249526000220 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1249526000221 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1249526000222 Ligand Binding Site [chemical binding]; other site 1249526000223 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1249526000224 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1249526000225 putative RNA binding site [nucleotide binding]; other site 1249526000226 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526000227 S-adenosylmethionine binding site [chemical binding]; other site 1249526000228 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1249526000229 TrkA-N domain; Region: TrkA_N; pfam02254 1249526000230 TrkA-C domain; Region: TrkA_C; pfam02080 1249526000231 TrkA-N domain; Region: TrkA_N; pfam02254 1249526000232 TrkA-C domain; Region: TrkA_C; pfam02080 1249526000233 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1249526000234 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1249526000235 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1249526000236 NAD binding site [chemical binding]; other site 1249526000237 catalytic residues [active] 1249526000238 substrate binding site [chemical binding]; other site 1249526000239 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1249526000240 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1249526000241 dimer interface [polypeptide binding]; other site 1249526000242 active site 1249526000243 metal binding site [ion binding]; metal-binding site 1249526000244 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1249526000245 active site turn [active] 1249526000246 phosphorylation site [posttranslational modification] 1249526000247 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1249526000248 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1249526000249 putative ligand binding site [chemical binding]; other site 1249526000250 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526000251 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526000252 TM-ABC transporter signature motif; other site 1249526000253 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249526000254 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249526000255 Walker A/P-loop; other site 1249526000256 ATP binding site [chemical binding]; other site 1249526000257 Q-loop/lid; other site 1249526000258 ABC transporter signature motif; other site 1249526000259 Walker B; other site 1249526000260 D-loop; other site 1249526000261 H-loop/switch region; other site 1249526000262 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249526000263 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1249526000264 intersubunit interface [polypeptide binding]; other site 1249526000265 active site 1249526000266 Zn2+ binding site [ion binding]; other site 1249526000267 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1249526000268 L-fuculokinase; Provisional; Region: PRK10331 1249526000269 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1249526000270 nucleotide binding site [chemical binding]; other site 1249526000271 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1249526000272 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1249526000273 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1249526000274 trimer interface [polypeptide binding]; other site 1249526000275 substrate binding site [chemical binding]; other site 1249526000276 Mn binding site [ion binding]; other site 1249526000277 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249526000278 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249526000279 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249526000280 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1249526000281 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1249526000282 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1249526000283 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1249526000284 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1249526000285 dimerization interface [polypeptide binding]; other site 1249526000286 ATP binding site [chemical binding]; other site 1249526000287 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1249526000288 dimerization interface [polypeptide binding]; other site 1249526000289 ATP binding site [chemical binding]; other site 1249526000290 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1249526000291 putative active site [active] 1249526000292 catalytic triad [active] 1249526000293 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1249526000294 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1249526000295 Transposase IS200 like; Region: Y1_Tnp; cl00848 1249526000296 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1249526000297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526000298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526000299 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1249526000300 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1249526000301 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1249526000302 Moco binding site; other site 1249526000303 metal coordination site [ion binding]; other site 1249526000304 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 1249526000305 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249526000306 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1249526000307 DNA binding residues [nucleotide binding] 1249526000308 putative oxidoreductase; Provisional; Region: PRK11579 1249526000309 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249526000310 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249526000311 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1249526000312 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1249526000313 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1249526000314 metal-binding site [ion binding] 1249526000315 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1249526000316 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1249526000317 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1249526000318 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1249526000319 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1249526000320 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1249526000321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249526000322 NAD(P) binding site [chemical binding]; other site 1249526000323 active site 1249526000324 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1249526000325 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1249526000326 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526000327 motif II; other site 1249526000328 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1249526000329 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1249526000330 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249526000331 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1249526000332 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1249526000333 putative active site [active] 1249526000334 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1249526000335 Transposase IS200 like; Region: Y1_Tnp; cl00848 1249526000336 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1249526000337 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1249526000338 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1249526000339 active site 1249526000340 P-loop; other site 1249526000341 phosphorylation site [posttranslational modification] 1249526000342 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1249526000343 active site 1249526000344 phosphorylation site [posttranslational modification] 1249526000345 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1249526000346 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1249526000347 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1249526000348 Mannitol repressor; Region: MtlR; cl11450 1249526000349 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1249526000350 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1249526000351 transmembrane helices; other site 1249526000352 TrkA-C domain; Region: TrkA_C; pfam02080 1249526000353 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249526000354 TrkA-C domain; Region: TrkA_C; pfam02080 1249526000355 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1249526000356 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1249526000357 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1249526000358 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526000359 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526000360 TM-ABC transporter signature motif; other site 1249526000361 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1249526000362 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249526000363 Walker A/P-loop; other site 1249526000364 ATP binding site [chemical binding]; other site 1249526000365 Q-loop/lid; other site 1249526000366 ABC transporter signature motif; other site 1249526000367 Walker B; other site 1249526000368 D-loop; other site 1249526000369 H-loop/switch region; other site 1249526000370 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249526000371 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1249526000372 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1249526000373 putative ligand binding site [chemical binding]; other site 1249526000374 xylose isomerase; Provisional; Region: PRK05474 1249526000375 xylose isomerase; Region: xylose_isom_A; TIGR02630 1249526000376 xylulokinase; Provisional; Region: PRK15027 1249526000377 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1249526000378 N- and C-terminal domain interface [polypeptide binding]; other site 1249526000379 active site 1249526000380 MgATP binding site [chemical binding]; other site 1249526000381 catalytic site [active] 1249526000382 metal binding site [ion binding]; metal-binding site 1249526000383 xylulose binding site [chemical binding]; other site 1249526000384 homodimer interface [polypeptide binding]; other site 1249526000385 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1249526000386 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1249526000387 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1249526000388 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1249526000389 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249526000390 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1249526000391 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1249526000392 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1249526000393 CrcB-like protein; Region: CRCB; cl09114 1249526000394 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1249526000395 amphipathic channel; other site 1249526000396 Asn-Pro-Ala signature motifs; other site 1249526000397 glycerol kinase; Provisional; Region: glpK; PRK00047 1249526000398 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1249526000399 N- and C-terminal domain interface [polypeptide binding]; other site 1249526000400 active site 1249526000401 MgATP binding site [chemical binding]; other site 1249526000402 catalytic site [active] 1249526000403 metal binding site [ion binding]; metal-binding site 1249526000404 glycerol binding site [chemical binding]; other site 1249526000405 homotetramer interface [polypeptide binding]; other site 1249526000406 homodimer interface [polypeptide binding]; other site 1249526000407 FBP binding site [chemical binding]; other site 1249526000408 protein IIAGlc interface [polypeptide binding]; other site 1249526000409 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1249526000410 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1249526000411 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1249526000412 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1249526000413 active site 1249526000414 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1249526000415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526000416 dimer interface [polypeptide binding]; other site 1249526000417 conserved gate region; other site 1249526000418 putative PBP binding loops; other site 1249526000419 ABC-ATPase subunit interface; other site 1249526000420 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1249526000421 NMT1-like family; Region: NMT1_2; pfam13379 1249526000422 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1249526000423 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249526000424 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249526000425 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1249526000426 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1249526000427 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249526000428 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1249526000429 Walker A/P-loop; other site 1249526000430 ATP binding site [chemical binding]; other site 1249526000431 Q-loop/lid; other site 1249526000432 ABC transporter signature motif; other site 1249526000433 Walker B; other site 1249526000434 D-loop; other site 1249526000435 H-loop/switch region; other site 1249526000436 RTX N-terminal domain; Region: RTX; pfam02382 1249526000437 RTX C-terminal domain; Region: RTX_C; pfam08339 1249526000438 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1249526000439 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1249526000440 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1249526000441 substrate binding pocket [chemical binding]; other site 1249526000442 membrane-bound complex binding site; other site 1249526000443 hinge residues; other site 1249526000444 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1249526000445 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1249526000446 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526000447 Walker A motif; other site 1249526000448 ATP binding site [chemical binding]; other site 1249526000449 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526000450 Walker B motif; other site 1249526000451 arginine finger; other site 1249526000452 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249526000453 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1249526000454 active site 1249526000455 HslU subunit interaction site [polypeptide binding]; other site 1249526000456 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1249526000457 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249526000458 EamA-like transporter family; Region: EamA; pfam00892 1249526000459 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1249526000460 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249526000461 putative metal binding site [ion binding]; other site 1249526000462 adenine DNA glycosylase; Provisional; Region: PRK10880 1249526000463 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249526000464 minor groove reading motif; other site 1249526000465 helix-hairpin-helix signature motif; other site 1249526000466 substrate binding pocket [chemical binding]; other site 1249526000467 active site 1249526000468 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1249526000469 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1249526000470 DNA binding and oxoG recognition site [nucleotide binding] 1249526000471 oxidative damage protection protein; Provisional; Region: PRK05408 1249526000472 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1249526000473 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1249526000474 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1249526000475 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1249526000476 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249526000477 catalytic residue [active] 1249526000478 signal recognition particle protein; Provisional; Region: PRK10867 1249526000479 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1249526000480 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1249526000481 P loop; other site 1249526000482 GTP binding site [chemical binding]; other site 1249526000483 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1249526000484 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249526000485 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249526000486 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249526000487 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249526000488 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249526000489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1249526000490 putative aldolase; Validated; Region: PRK08130 1249526000491 intersubunit interface [polypeptide binding]; other site 1249526000492 active site 1249526000493 Zn2+ binding site [ion binding]; other site 1249526000494 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1249526000495 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1249526000496 Metal-binding active site; metal-binding site 1249526000497 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1249526000498 GntP family permease; Region: GntP_permease; pfam02447 1249526000499 Predicted peptidase [General function prediction only]; Region: COG4099 1249526000500 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1249526000501 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1249526000502 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526000503 FeS/SAM binding site; other site 1249526000504 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 1249526000505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249526000506 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1249526000507 NAD(P) binding site [chemical binding]; other site 1249526000508 active site 1249526000509 Dihaem cytochrome c; Region: DHC; pfam09626 1249526000510 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1249526000511 dimer interface [polypeptide binding]; other site 1249526000512 motif 1; other site 1249526000513 active site 1249526000514 motif 2; other site 1249526000515 motif 3; other site 1249526000516 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1249526000517 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1249526000518 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1249526000519 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1249526000520 DALR anticodon binding domain; Region: DALR_1; pfam05746 1249526000521 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1249526000522 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1249526000523 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1249526000524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1249526000525 YheO-like PAS domain; Region: PAS_6; pfam08348 1249526000526 HTH domain; Region: HTH_22; pfam13309 1249526000527 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1249526000528 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1249526000529 active site 1249526000530 Int/Topo IB signature motif; other site 1249526000531 Protein of unknown function (DUF454); Region: DUF454; cl01063 1249526000532 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1249526000533 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526000534 S-adenosylmethionine binding site [chemical binding]; other site 1249526000535 hypothetical protein; Provisional; Region: PRK11027 1249526000536 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1249526000537 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1249526000538 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1249526000539 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1249526000540 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1249526000541 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1249526000542 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1249526000543 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1249526000544 MPT binding site; other site 1249526000545 trimer interface [polypeptide binding]; other site 1249526000546 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1249526000547 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1249526000548 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1249526000549 binding surface 1249526000550 TPR motif; other site 1249526000551 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1249526000552 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1249526000553 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1249526000554 catalytic residues [active] 1249526000555 central insert; other site 1249526000556 pantothenate kinase; Provisional; Region: PRK05439 1249526000557 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1249526000558 ATP-binding site [chemical binding]; other site 1249526000559 CoA-binding site [chemical binding]; other site 1249526000560 Mg2+-binding site [ion binding]; other site 1249526000561 elongation factor Tu; Reviewed; Region: PRK00049 1249526000562 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1249526000563 G1 box; other site 1249526000564 GEF interaction site [polypeptide binding]; other site 1249526000565 GTP/Mg2+ binding site [chemical binding]; other site 1249526000566 Switch I region; other site 1249526000567 G2 box; other site 1249526000568 G3 box; other site 1249526000569 Switch II region; other site 1249526000570 G4 box; other site 1249526000571 G5 box; other site 1249526000572 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1249526000573 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1249526000574 Antibiotic Binding Site [chemical binding]; other site 1249526000575 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1249526000576 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1249526000577 Walker A/P-loop; other site 1249526000578 ATP binding site [chemical binding]; other site 1249526000579 Q-loop/lid; other site 1249526000580 ABC transporter signature motif; other site 1249526000581 Walker B; other site 1249526000582 D-loop; other site 1249526000583 H-loop/switch region; other site 1249526000584 TOBE domain; Region: TOBE_2; pfam08402 1249526000585 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249526000586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526000587 dimer interface [polypeptide binding]; other site 1249526000588 conserved gate region; other site 1249526000589 putative PBP binding loops; other site 1249526000590 ABC-ATPase subunit interface; other site 1249526000591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526000592 dimer interface [polypeptide binding]; other site 1249526000593 conserved gate region; other site 1249526000594 putative PBP binding loops; other site 1249526000595 ABC-ATPase subunit interface; other site 1249526000596 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1249526000597 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249526000598 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1249526000599 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249526000600 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249526000601 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1249526000602 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1249526000603 glutaminase active site [active] 1249526000604 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1249526000605 dimer interface [polypeptide binding]; other site 1249526000606 active site 1249526000607 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1249526000608 dimer interface [polypeptide binding]; other site 1249526000609 active site 1249526000610 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1249526000611 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1249526000612 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1249526000613 RNA binding site [nucleotide binding]; other site 1249526000614 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1249526000615 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1249526000616 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1249526000617 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1249526000618 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1249526000619 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1249526000620 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1249526000621 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1249526000622 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 1249526000623 23S rRNA interface [nucleotide binding]; other site 1249526000624 L21e interface [polypeptide binding]; other site 1249526000625 5S rRNA interface [nucleotide binding]; other site 1249526000626 L27 interface [polypeptide binding]; other site 1249526000627 L5 interface [polypeptide binding]; other site 1249526000628 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1249526000629 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1249526000630 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1249526000631 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1249526000632 23S rRNA binding site [nucleotide binding]; other site 1249526000633 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1249526000634 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1249526000635 SecY translocase; Region: SecY; pfam00344 1249526000636 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1249526000637 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1249526000638 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1249526000639 30S ribosomal protein S11; Validated; Region: PRK05309 1249526000640 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1249526000641 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1249526000642 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1249526000643 RNA binding surface [nucleotide binding]; other site 1249526000644 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1249526000645 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1249526000646 alphaNTD homodimer interface [polypeptide binding]; other site 1249526000647 alphaNTD - beta interaction site [polypeptide binding]; other site 1249526000648 alphaNTD - beta' interaction site [polypeptide binding]; other site 1249526000649 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1249526000650 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1249526000651 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249526000652 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1249526000653 putative dimerization interface [polypeptide binding]; other site 1249526000654 putative ligand binding site [chemical binding]; other site 1249526000655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526000656 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249526000657 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526000658 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1249526000659 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249526000660 DNA binding site [nucleotide binding] 1249526000661 domain linker motif; other site 1249526000662 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1249526000663 putative ligand binding site [chemical binding]; other site 1249526000664 putative dimerization interface [polypeptide binding]; other site 1249526000665 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1249526000666 Shikimate kinase; Region: SKI; pfam01202 1249526000667 ATP-binding site [chemical binding]; other site 1249526000668 Gluconate-6-phosphate binding site [chemical binding]; other site 1249526000669 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1249526000670 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1249526000671 cell density-dependent motility repressor; Provisional; Region: PRK10082 1249526000672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526000673 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1249526000674 dimerization interface [polypeptide binding]; other site 1249526000675 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1249526000676 aspartate racemase; Region: asp_race; TIGR00035 1249526000677 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1249526000678 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1249526000679 succinic semialdehyde dehydrogenase; Region: PLN02278 1249526000680 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1249526000681 tetramerization interface [polypeptide binding]; other site 1249526000682 NAD(P) binding site [chemical binding]; other site 1249526000683 catalytic residues [active] 1249526000684 KduI/IolB family; Region: KduI; cl01508 1249526000685 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1249526000686 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1249526000687 tetrameric interface [polypeptide binding]; other site 1249526000688 NAD binding site [chemical binding]; other site 1249526000689 catalytic residues [active] 1249526000690 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1249526000691 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1249526000692 ligand binding site [chemical binding]; other site 1249526000693 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249526000694 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249526000695 Walker A/P-loop; other site 1249526000696 ATP binding site [chemical binding]; other site 1249526000697 Q-loop/lid; other site 1249526000698 ABC transporter signature motif; other site 1249526000699 Walker B; other site 1249526000700 D-loop; other site 1249526000701 H-loop/switch region; other site 1249526000702 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249526000703 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526000704 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526000705 TM-ABC transporter signature motif; other site 1249526000706 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249526000707 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249526000708 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249526000709 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1249526000710 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1249526000711 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1249526000712 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1249526000713 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1249526000714 Metal-binding active site; metal-binding site 1249526000715 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1249526000716 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249526000717 PYR/PP interface [polypeptide binding]; other site 1249526000718 dimer interface [polypeptide binding]; other site 1249526000719 TPP binding site [chemical binding]; other site 1249526000720 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249526000721 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1249526000722 TPP-binding site; other site 1249526000723 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249526000724 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1249526000725 substrate binding site [chemical binding]; other site 1249526000726 ATP binding site [chemical binding]; other site 1249526000727 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1249526000728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1249526000729 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 1249526000730 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 1249526000731 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1249526000732 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1249526000733 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249526000734 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249526000735 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1249526000736 putative active site [active] 1249526000737 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1249526000738 active site turn [active] 1249526000739 phosphorylation site [posttranslational modification] 1249526000740 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1249526000741 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1249526000742 RimM N-terminal domain; Region: RimM; pfam01782 1249526000743 PRC-barrel domain; Region: PRC; pfam05239 1249526000744 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1249526000745 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1249526000746 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 1249526000747 metal binding site [ion binding]; metal-binding site 1249526000748 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1249526000749 Cupin domain; Region: Cupin_2; cl17218 1249526000750 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1249526000751 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1249526000752 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1249526000753 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1249526000754 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1249526000755 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1249526000756 carboxyltransferase (CT) interaction site; other site 1249526000757 biotinylation site [posttranslational modification]; other site 1249526000758 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1249526000759 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1249526000760 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1249526000761 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1249526000762 active site 1249526000763 trimer interface [polypeptide binding]; other site 1249526000764 dimer interface [polypeptide binding]; other site 1249526000765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249526000766 Coenzyme A binding pocket [chemical binding]; other site 1249526000767 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1249526000768 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1249526000769 trimer interface [polypeptide binding]; other site 1249526000770 active site 1249526000771 substrate binding site [chemical binding]; other site 1249526000772 CoA binding site [chemical binding]; other site 1249526000773 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1249526000774 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1249526000775 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1249526000776 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526000777 S-adenosylmethionine binding site [chemical binding]; other site 1249526000778 Sporulation related domain; Region: SPOR; pfam05036 1249526000779 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1249526000780 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249526000781 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1249526000782 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526000783 Walker A motif; other site 1249526000784 ATP binding site [chemical binding]; other site 1249526000785 Part of AAA domain; Region: AAA_19; pfam13245 1249526000786 Family description; Region: UvrD_C_2; pfam13538 1249526000787 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249526000788 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1249526000789 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1249526000790 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526000791 S-adenosylmethionine binding site [chemical binding]; other site 1249526000792 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1249526000793 non-specific DNA binding site [nucleotide binding]; other site 1249526000794 salt bridge; other site 1249526000795 sequence-specific DNA binding site [nucleotide binding]; other site 1249526000796 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1249526000797 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1249526000798 catalytic residues [active] 1249526000799 catalytic nucleophile [active] 1249526000800 Recombinase; Region: Recombinase; pfam07508 1249526000801 RepB plasmid partitioning protein; Region: RepB; pfam07506 1249526000802 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1249526000803 ParB-like nuclease domain; Region: ParBc; cl02129 1249526000804 RepB plasmid partitioning protein; Region: RepB; pfam07506 1249526000805 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526000806 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526000807 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526000808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526000809 Integrase core domain; Region: rve; pfam00665 1249526000810 Integrase core domain; Region: rve_3; pfam13683 1249526000811 TniQ; Region: TniQ; pfam06527 1249526000812 Bacterial TniB protein; Region: TniB; pfam05621 1249526000813 AAA domain; Region: AAA_22; pfam13401 1249526000814 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526000815 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526000816 Integrase core domain; Region: rve; pfam00665 1249526000817 Integrase core domain; Region: rve_3; cl15866 1249526000818 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1249526000819 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1249526000820 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1249526000821 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1249526000822 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1249526000823 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1249526000824 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1249526000825 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1249526000826 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1249526000827 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1249526000828 dimer interface [polypeptide binding]; other site 1249526000829 tetramer interface [polypeptide binding]; other site 1249526000830 PYR/PP interface [polypeptide binding]; other site 1249526000831 TPP binding site [chemical binding]; other site 1249526000832 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1249526000833 TPP-binding site; other site 1249526000834 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1249526000835 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1249526000836 Ligand binding site; other site 1249526000837 metal-binding site 1249526000838 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1249526000839 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249526000840 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1249526000841 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1249526000842 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1249526000843 ligand binding site [chemical binding]; other site 1249526000844 calcium binding site [ion binding]; other site 1249526000845 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1249526000846 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1249526000847 ligand binding site [chemical binding]; other site 1249526000848 calcium binding site [ion binding]; other site 1249526000849 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249526000850 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1249526000851 Walker A/P-loop; other site 1249526000852 ATP binding site [chemical binding]; other site 1249526000853 Q-loop/lid; other site 1249526000854 ABC transporter signature motif; other site 1249526000855 Walker B; other site 1249526000856 D-loop; other site 1249526000857 H-loop/switch region; other site 1249526000858 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249526000859 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526000860 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526000861 TM-ABC transporter signature motif; other site 1249526000862 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526000863 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1249526000864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526000865 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526000866 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1249526000867 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1249526000868 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1249526000869 Glutamate binding site [chemical binding]; other site 1249526000870 NAD binding site [chemical binding]; other site 1249526000871 catalytic residues [active] 1249526000872 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1249526000873 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1249526000874 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1249526000875 inhibitor-cofactor binding pocket; inhibition site 1249526000876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526000877 catalytic residue [active] 1249526000878 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526000879 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526000880 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1249526000881 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1249526000882 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1249526000883 hypothetical protein; Provisional; Region: PRK10506 1249526000884 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1249526000885 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1249526000886 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1249526000887 protease3; Provisional; Region: PRK15101 1249526000888 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1249526000889 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1249526000890 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1249526000891 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526000892 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249526000893 peptide binding site [polypeptide binding]; other site 1249526000894 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1249526000895 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1249526000896 N-terminal plug; other site 1249526000897 ligand-binding site [chemical binding]; other site 1249526000898 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1249526000899 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1249526000900 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1249526000901 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1249526000902 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1249526000903 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1249526000904 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1249526000905 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1249526000906 FAD binding domain; Region: FAD_binding_4; pfam01565 1249526000907 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1249526000908 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1249526000909 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1249526000910 ligand binding site [chemical binding]; other site 1249526000911 flexible hinge region; other site 1249526000912 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1249526000913 putative switch regulator; other site 1249526000914 non-specific DNA interactions [nucleotide binding]; other site 1249526000915 DNA binding site [nucleotide binding] 1249526000916 sequence specific DNA binding site [nucleotide binding]; other site 1249526000917 putative cAMP binding site [chemical binding]; other site 1249526000918 hypothetical protein; Provisional; Region: PRK04966 1249526000919 division inhibitor protein; Provisional; Region: slmA; PRK09480 1249526000920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249526000921 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1249526000922 trimer interface [polypeptide binding]; other site 1249526000923 active site 1249526000924 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1249526000925 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1249526000926 Ligand binding site; other site 1249526000927 metal-binding site 1249526000928 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1249526000929 Src Homology 3 domain superfamily; Region: SH3; cl17036 1249526000930 peptide ligand binding site [polypeptide binding]; other site 1249526000931 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1249526000932 Flavoprotein; Region: Flavoprotein; pfam02441 1249526000933 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1249526000934 hypothetical protein; Reviewed; Region: PRK00024 1249526000935 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1249526000936 MPN+ (JAMM) motif; other site 1249526000937 Zinc-binding site [ion binding]; other site 1249526000938 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1249526000939 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1249526000940 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1249526000941 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1249526000942 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249526000943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1249526000944 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1249526000945 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1249526000946 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1249526000947 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1249526000948 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1249526000949 inhibitor-cofactor binding pocket; inhibition site 1249526000950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526000951 catalytic residue [active] 1249526000952 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1249526000953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526000954 catalytic residue [active] 1249526000955 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1249526000956 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1249526000957 ferredoxin-type protein NapF; Region: napF; TIGR00402 1249526000958 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1249526000959 4Fe-4S binding domain; Region: Fer4; cl02805 1249526000960 NapD protein; Region: NapD; pfam03927 1249526000961 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1249526000962 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1249526000963 [4Fe-4S] binding site [ion binding]; other site 1249526000964 molybdopterin cofactor binding site; other site 1249526000965 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1249526000966 molybdopterin cofactor binding site; other site 1249526000967 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1249526000968 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1249526000969 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1249526000970 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1249526000971 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1249526000972 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1249526000973 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1249526000974 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1249526000975 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249526000976 active site 1249526000977 metal binding site [ion binding]; metal-binding site 1249526000978 hexamer interface [polypeptide binding]; other site 1249526000979 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 1249526000980 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1249526000981 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1249526000982 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1249526000983 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1249526000984 molybdopterin cofactor binding site [chemical binding]; other site 1249526000985 substrate binding site [chemical binding]; other site 1249526000986 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1249526000987 molybdopterin cofactor binding site; other site 1249526000988 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1249526000989 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1249526000990 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249526000991 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526000992 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526000993 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526000994 Integrase core domain; Region: rve; pfam00665 1249526000995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526000996 Integrase core domain; Region: rve_3; pfam13683 1249526000997 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1249526000998 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1249526000999 dimer interface [polypeptide binding]; other site 1249526001000 ADP-ribose binding site [chemical binding]; other site 1249526001001 active site 1249526001002 nudix motif; other site 1249526001003 metal binding site [ion binding]; metal-binding site 1249526001004 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1249526001005 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1249526001006 Predicted membrane protein [Function unknown]; Region: COG2510 1249526001007 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249526001008 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1249526001009 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1249526001010 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1249526001011 Na binding site [ion binding]; other site 1249526001012 Protein of unknown function (DUF997); Region: DUF997; pfam06196 1249526001013 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1249526001014 dimerization interface [polypeptide binding]; other site 1249526001015 DNA binding site [nucleotide binding] 1249526001016 corepressor binding sites; other site 1249526001017 VacJ like lipoprotein; Region: VacJ; cl01073 1249526001018 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1249526001019 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249526001020 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249526001021 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249526001022 Virulence protein [General function prediction only]; Region: COG3943 1249526001023 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249526001024 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1249526001025 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249526001026 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249526001027 trimer interface [polypeptide binding]; other site 1249526001028 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249526001029 trimer interface [polypeptide binding]; other site 1249526001030 Haemagglutinin; Region: HIM; pfam05662 1249526001031 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1249526001032 YadA-like C-terminal region; Region: YadA; pfam03895 1249526001033 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1249526001034 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526001035 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526001036 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526001037 Integrase core domain; Region: rve; pfam00665 1249526001038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526001039 Integrase core domain; Region: rve_3; pfam13683 1249526001040 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1249526001041 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249526001042 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1249526001043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526001044 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1249526001045 dimerization interface [polypeptide binding]; other site 1249526001046 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1249526001047 catalytic triad [active] 1249526001048 dimer interface [polypeptide binding]; other site 1249526001049 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249526001050 threonine synthase; Validated; Region: PRK09225 1249526001051 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1249526001052 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249526001053 catalytic residue [active] 1249526001054 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1249526001055 active site 1249526001056 dimer interfaces [polypeptide binding]; other site 1249526001057 catalytic residues [active] 1249526001058 TIGR01666 family membrane protein; Region: YCCS 1249526001059 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1249526001060 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1249526001061 HEXXH motif domain; Region: mod_HExxH; TIGR04267 1249526001062 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1249526001063 Paraquat-inducible protein A; Region: PqiA; pfam04403 1249526001064 Paraquat-inducible protein A; Region: PqiA; pfam04403 1249526001065 ketol-acid reductoisomerase; Validated; Region: PRK05225 1249526001066 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1249526001067 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1249526001068 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1249526001069 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1249526001070 ATP binding site [chemical binding]; other site 1249526001071 active site 1249526001072 substrate binding site [chemical binding]; other site 1249526001073 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1249526001074 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1249526001075 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1249526001076 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1249526001077 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1249526001078 NAD binding site [chemical binding]; other site 1249526001079 dimerization interface [polypeptide binding]; other site 1249526001080 product binding site; other site 1249526001081 substrate binding site [chemical binding]; other site 1249526001082 zinc binding site [ion binding]; other site 1249526001083 catalytic residues [active] 1249526001084 putative phosphate acyltransferase; Provisional; Region: PRK05331 1249526001085 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1249526001086 hypothetical protein; Provisional; Region: PRK11193 1249526001087 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1249526001088 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1249526001089 Domain of unknown function DUF21; Region: DUF21; pfam01595 1249526001090 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1249526001091 Transporter associated domain; Region: CorC_HlyC; smart01091 1249526001092 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1249526001093 Na2 binding site [ion binding]; other site 1249526001094 putative substrate binding site 1 [chemical binding]; other site 1249526001095 Na binding site 1 [ion binding]; other site 1249526001096 putative substrate binding site 2 [chemical binding]; other site 1249526001097 glutaredoxin 1; Provisional; Region: grxA; PRK11200 1249526001098 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1249526001099 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1249526001100 ATP binding site [chemical binding]; other site 1249526001101 Mg++ binding site [ion binding]; other site 1249526001102 motif III; other site 1249526001103 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526001104 nucleotide binding region [chemical binding]; other site 1249526001105 ATP-binding site [chemical binding]; other site 1249526001106 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1249526001107 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249526001108 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1249526001109 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249526001110 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1249526001111 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1249526001112 catalytic residues [active] 1249526001113 hinge region; other site 1249526001114 alpha helical domain; other site 1249526001115 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1249526001116 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1249526001117 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1249526001118 GTP binding site; other site 1249526001119 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1249526001120 Walker A motif; other site 1249526001121 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1249526001122 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1249526001123 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249526001124 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1249526001125 AMP binding site [chemical binding]; other site 1249526001126 metal binding site [ion binding]; metal-binding site 1249526001127 active site 1249526001128 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1249526001129 active site 1249526001130 phosphate binding residues; other site 1249526001131 catalytic residues [active] 1249526001132 Pirin-related protein [General function prediction only]; Region: COG1741 1249526001133 Pirin; Region: Pirin; pfam02678 1249526001134 hypothetical protein; Provisional; Region: PRK11212 1249526001135 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1249526001136 active site 1249526001137 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249526001138 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1249526001139 active site turn [active] 1249526001140 phosphorylation site [posttranslational modification] 1249526001141 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 1249526001142 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249526001143 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1249526001144 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1249526001145 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526001146 Walker A/P-loop; other site 1249526001147 ATP binding site [chemical binding]; other site 1249526001148 Q-loop/lid; other site 1249526001149 ABC transporter signature motif; other site 1249526001150 Walker B; other site 1249526001151 D-loop; other site 1249526001152 H-loop/switch region; other site 1249526001153 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1249526001154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526001155 dimer interface [polypeptide binding]; other site 1249526001156 conserved gate region; other site 1249526001157 putative PBP binding loops; other site 1249526001158 ABC-ATPase subunit interface; other site 1249526001159 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1249526001160 dimerization domain swap beta strand [polypeptide binding]; other site 1249526001161 regulatory protein interface [polypeptide binding]; other site 1249526001162 active site 1249526001163 regulatory phosphorylation site [posttranslational modification]; other site 1249526001164 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1249526001165 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1249526001166 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1249526001167 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1249526001168 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1249526001169 HPr interaction site; other site 1249526001170 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1249526001171 active site 1249526001172 phosphorylation site [posttranslational modification] 1249526001173 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1249526001174 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1249526001175 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526001176 FeS/SAM binding site; other site 1249526001177 TRAM domain; Region: TRAM; pfam01938 1249526001178 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249526001179 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1249526001180 putative substrate binding site [chemical binding]; other site 1249526001181 putative ATP binding site [chemical binding]; other site 1249526001182 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1249526001183 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1249526001184 substrate binding [chemical binding]; other site 1249526001185 active site 1249526001186 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1249526001187 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1249526001188 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249526001189 DNA binding site [nucleotide binding] 1249526001190 domain linker motif; other site 1249526001191 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1249526001192 dimerization interface [polypeptide binding]; other site 1249526001193 ligand binding site [chemical binding]; other site 1249526001194 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249526001195 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1249526001196 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1249526001197 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249526001198 Zn2+ binding site [ion binding]; other site 1249526001199 Mg2+ binding site [ion binding]; other site 1249526001200 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1249526001201 synthetase active site [active] 1249526001202 NTP binding site [chemical binding]; other site 1249526001203 metal binding site [ion binding]; metal-binding site 1249526001204 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1249526001205 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1249526001206 Abi-like protein; Region: Abi_2; cl01988 1249526001207 ferrochelatase; Reviewed; Region: hemH; PRK00035 1249526001208 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1249526001209 C-terminal domain interface [polypeptide binding]; other site 1249526001210 active site 1249526001211 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1249526001212 active site 1249526001213 N-terminal domain interface [polypeptide binding]; other site 1249526001214 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1249526001215 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1249526001216 Haemolytic domain; Region: Haemolytic; pfam01809 1249526001217 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1249526001218 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1249526001219 Chain length determinant protein; Region: Wzz; pfam02706 1249526001220 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1249526001221 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249526001222 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1249526001223 active site 1249526001224 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1249526001225 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249526001226 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1249526001227 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1249526001228 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1249526001229 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1249526001230 metal binding triad [ion binding]; metal-binding site 1249526001231 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1249526001232 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1249526001233 NAD binding site [chemical binding]; other site 1249526001234 substrate binding site [chemical binding]; other site 1249526001235 homodimer interface [polypeptide binding]; other site 1249526001236 active site 1249526001237 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1249526001238 O-Antigen ligase; Region: Wzy_C; pfam04932 1249526001239 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1249526001240 putative active site [active] 1249526001241 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1249526001242 DNA primase; Validated; Region: dnaG; PRK05667 1249526001243 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1249526001244 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1249526001245 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1249526001246 active site 1249526001247 metal binding site [ion binding]; metal-binding site 1249526001248 interdomain interaction site; other site 1249526001249 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1249526001250 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1249526001251 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1249526001252 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1249526001253 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1249526001254 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1249526001255 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249526001256 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1249526001257 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1249526001258 DNA binding residues [nucleotide binding] 1249526001259 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1249526001260 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1249526001261 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1249526001262 UbiA prenyltransferase family; Region: UbiA; pfam01040 1249526001263 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1249526001264 homodimer interaction site [polypeptide binding]; other site 1249526001265 cofactor binding site; other site 1249526001266 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1249526001267 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1249526001268 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1249526001269 amphipathic channel; other site 1249526001270 Asn-Pro-Ala signature motifs; other site 1249526001271 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1249526001272 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249526001273 threonine dehydratase; Reviewed; Region: PRK09224 1249526001274 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1249526001275 tetramer interface [polypeptide binding]; other site 1249526001276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526001277 catalytic residue [active] 1249526001278 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1249526001279 putative Ile/Val binding site [chemical binding]; other site 1249526001280 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1249526001281 putative Ile/Val binding site [chemical binding]; other site 1249526001282 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1249526001283 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1249526001284 active site 1249526001285 substrate binding site [chemical binding]; other site 1249526001286 metal binding site [ion binding]; metal-binding site 1249526001287 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1249526001288 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249526001289 active site 1249526001290 dimer interface [polypeptide binding]; other site 1249526001291 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1249526001292 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1249526001293 ligand binding site [chemical binding]; other site 1249526001294 NAD binding site [chemical binding]; other site 1249526001295 tetramer interface [polypeptide binding]; other site 1249526001296 catalytic site [active] 1249526001297 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1249526001298 L-serine binding site [chemical binding]; other site 1249526001299 ACT domain interface; other site 1249526001300 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1249526001301 two-component response regulator; Provisional; Region: PRK11173 1249526001302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1249526001303 active site 1249526001304 phosphorylation site [posttranslational modification] 1249526001305 intermolecular recognition site; other site 1249526001306 dimerization interface [polypeptide binding]; other site 1249526001307 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1249526001308 DNA binding site [nucleotide binding] 1249526001309 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249526001310 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1249526001311 active site 1249526001312 metal binding site [ion binding]; metal-binding site 1249526001313 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1249526001314 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249526001315 active site 1249526001316 nucleotide binding site [chemical binding]; other site 1249526001317 HIGH motif; other site 1249526001318 KMSKS motif; other site 1249526001319 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1249526001320 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1249526001321 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1249526001322 active site 1249526001323 Riboflavin kinase; Region: Flavokinase; smart00904 1249526001324 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1249526001325 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249526001326 active site 1249526001327 HIGH motif; other site 1249526001328 nucleotide binding site [chemical binding]; other site 1249526001329 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1249526001330 active site 1249526001331 KMSKS motif; other site 1249526001332 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1249526001333 tRNA binding surface [nucleotide binding]; other site 1249526001334 anticodon binding site; other site 1249526001335 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1249526001336 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1249526001337 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249526001338 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1249526001339 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1249526001340 domain interface [polypeptide binding]; other site 1249526001341 putative active site [active] 1249526001342 catalytic site [active] 1249526001343 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1249526001344 domain interface [polypeptide binding]; other site 1249526001345 putative active site [active] 1249526001346 catalytic site [active] 1249526001347 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1249526001348 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1249526001349 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1249526001350 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1249526001351 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526001352 Walker A/P-loop; other site 1249526001353 ATP binding site [chemical binding]; other site 1249526001354 Q-loop/lid; other site 1249526001355 ABC transporter signature motif; other site 1249526001356 Walker B; other site 1249526001357 D-loop; other site 1249526001358 H-loop/switch region; other site 1249526001359 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1249526001360 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526001361 Walker A/P-loop; other site 1249526001362 ATP binding site [chemical binding]; other site 1249526001363 Q-loop/lid; other site 1249526001364 ABC transporter signature motif; other site 1249526001365 Walker B; other site 1249526001366 D-loop; other site 1249526001367 H-loop/switch region; other site 1249526001368 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1249526001369 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526001370 dimer interface [polypeptide binding]; other site 1249526001371 conserved gate region; other site 1249526001372 putative PBP binding loops; other site 1249526001373 ABC-ATPase subunit interface; other site 1249526001374 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249526001375 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526001376 dimer interface [polypeptide binding]; other site 1249526001377 conserved gate region; other site 1249526001378 putative PBP binding loops; other site 1249526001379 ABC-ATPase subunit interface; other site 1249526001380 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526001381 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 1249526001382 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1249526001383 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1249526001384 G1 box; other site 1249526001385 putative GEF interaction site [polypeptide binding]; other site 1249526001386 GTP/Mg2+ binding site [chemical binding]; other site 1249526001387 Switch I region; other site 1249526001388 G2 box; other site 1249526001389 G3 box; other site 1249526001390 Switch II region; other site 1249526001391 G4 box; other site 1249526001392 G5 box; other site 1249526001393 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1249526001394 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249526001395 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1249526001396 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1249526001397 putative active site [active] 1249526001398 catalytic residue [active] 1249526001399 GTP-binding protein YchF; Reviewed; Region: PRK09601 1249526001400 YchF GTPase; Region: YchF; cd01900 1249526001401 G1 box; other site 1249526001402 GTP/Mg2+ binding site [chemical binding]; other site 1249526001403 Switch I region; other site 1249526001404 G2 box; other site 1249526001405 Switch II region; other site 1249526001406 G3 box; other site 1249526001407 G4 box; other site 1249526001408 G5 box; other site 1249526001409 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1249526001410 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1249526001411 L-lactate permease; Region: Lactate_perm; cl00701 1249526001412 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249526001413 Cysteine-rich domain; Region: CCG; pfam02754 1249526001414 Cysteine-rich domain; Region: CCG; pfam02754 1249526001415 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1249526001416 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1249526001417 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1249526001418 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1249526001419 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1249526001420 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1249526001421 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1249526001422 ribonuclease PH; Reviewed; Region: rph; PRK00173 1249526001423 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1249526001424 hexamer interface [polypeptide binding]; other site 1249526001425 active site 1249526001426 hypothetical protein; Provisional; Region: PRK11820 1249526001427 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1249526001428 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1249526001429 putative global regulator; Reviewed; Region: PRK09559 1249526001430 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1249526001431 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1249526001432 D-ribose pyranase; Provisional; Region: PRK11797 1249526001433 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1249526001434 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249526001435 Walker A/P-loop; other site 1249526001436 ATP binding site [chemical binding]; other site 1249526001437 Q-loop/lid; other site 1249526001438 ABC transporter signature motif; other site 1249526001439 Walker B; other site 1249526001440 D-loop; other site 1249526001441 H-loop/switch region; other site 1249526001442 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249526001443 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526001444 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526001445 TM-ABC transporter signature motif; other site 1249526001446 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1249526001447 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1249526001448 ligand binding site [chemical binding]; other site 1249526001449 dimerization interface [polypeptide binding]; other site 1249526001450 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249526001451 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1249526001452 substrate binding site [chemical binding]; other site 1249526001453 dimer interface [polypeptide binding]; other site 1249526001454 ATP binding site [chemical binding]; other site 1249526001455 transcriptional repressor RbsR; Provisional; Region: PRK10423 1249526001456 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249526001457 DNA binding site [nucleotide binding] 1249526001458 domain linker motif; other site 1249526001459 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1249526001460 dimerization interface [polypeptide binding]; other site 1249526001461 ligand binding site [chemical binding]; other site 1249526001462 transcriptional regulator NarP; Provisional; Region: PRK10403 1249526001463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1249526001464 active site 1249526001465 phosphorylation site [posttranslational modification] 1249526001466 intermolecular recognition site; other site 1249526001467 dimerization interface [polypeptide binding]; other site 1249526001468 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1249526001469 DNA binding residues [nucleotide binding] 1249526001470 dimerization interface [polypeptide binding]; other site 1249526001471 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1249526001472 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1249526001473 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1249526001474 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1249526001475 putative RNA binding site [nucleotide binding]; other site 1249526001476 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526001477 S-adenosylmethionine binding site [chemical binding]; other site 1249526001478 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1249526001479 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249526001480 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1249526001481 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1249526001482 active site 1249526001483 trimer interface [polypeptide binding]; other site 1249526001484 allosteric site; other site 1249526001485 active site lid [active] 1249526001486 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1249526001487 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1249526001488 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1249526001489 active site 1249526001490 dimer interface [polypeptide binding]; other site 1249526001491 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1249526001492 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1249526001493 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1249526001494 active site 1249526001495 HIGH motif; other site 1249526001496 dimer interface [polypeptide binding]; other site 1249526001497 KMSKS motif; other site 1249526001498 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1249526001499 RNA binding surface [nucleotide binding]; other site 1249526001500 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1249526001501 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1249526001502 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1249526001503 active site 1249526001504 catalytic residues [active] 1249526001505 metal binding site [ion binding]; metal-binding site 1249526001506 homodimer binding site [polypeptide binding]; other site 1249526001507 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1249526001508 carboxyltransferase (CT) interaction site; other site 1249526001509 biotinylation site [posttranslational modification]; other site 1249526001510 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1249526001511 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1249526001512 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1249526001513 putative active site [active] 1249526001514 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1249526001515 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1249526001516 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1249526001517 DNA ligase; Provisional; Region: PRK09125 1249526001518 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1249526001519 DNA binding site [nucleotide binding] 1249526001520 active site 1249526001521 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 1249526001522 DNA binding site [nucleotide binding] 1249526001523 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1249526001524 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1249526001525 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1249526001526 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1249526001527 G1 box; other site 1249526001528 GTP/Mg2+ binding site [chemical binding]; other site 1249526001529 Switch I region; other site 1249526001530 G2 box; other site 1249526001531 G3 box; other site 1249526001532 Switch II region; other site 1249526001533 G4 box; other site 1249526001534 G5 box; other site 1249526001535 RNase E inhibitor protein; Provisional; Region: PRK11191 1249526001536 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1249526001537 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1249526001538 CPxP motif; other site 1249526001539 proline dipeptidase; Provisional; Region: PRK13607 1249526001540 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1249526001541 active site 1249526001542 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1249526001543 EamA-like transporter family; Region: EamA; pfam00892 1249526001544 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1249526001545 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1249526001546 active site 1249526001547 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1249526001548 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1249526001549 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1249526001550 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1249526001551 putative NADH binding site [chemical binding]; other site 1249526001552 putative active site [active] 1249526001553 nudix motif; other site 1249526001554 putative metal binding site [ion binding]; other site 1249526001555 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1249526001556 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1249526001557 active site 1249526001558 dimer interface [polypeptide binding]; other site 1249526001559 catalytic residues [active] 1249526001560 effector binding site; other site 1249526001561 R2 peptide binding site; other site 1249526001562 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1249526001563 dimer interface [polypeptide binding]; other site 1249526001564 putative radical transfer pathway; other site 1249526001565 diiron center [ion binding]; other site 1249526001566 tyrosyl radical; other site 1249526001567 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1249526001568 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1249526001569 FMN binding site [chemical binding]; other site 1249526001570 active site 1249526001571 catalytic residues [active] 1249526001572 substrate binding site [chemical binding]; other site 1249526001573 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1249526001574 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1249526001575 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1249526001576 substrate binding site [chemical binding]; other site 1249526001577 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1249526001578 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1249526001579 substrate binding site [chemical binding]; other site 1249526001580 ligand binding site [chemical binding]; other site 1249526001581 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1249526001582 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1249526001583 peptide binding site [polypeptide binding]; other site 1249526001584 Acylphosphatase; Region: Acylphosphatase; cl00551 1249526001585 aminopeptidase N; Provisional; Region: pepN; PRK14015 1249526001586 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1249526001587 active site 1249526001588 Zn binding site [ion binding]; other site 1249526001589 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1249526001590 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1249526001591 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1249526001592 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1249526001593 ligand-binding site [chemical binding]; other site 1249526001594 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1249526001595 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1249526001596 aromatic amino acid transport protein; Region: araaP; TIGR00837 1249526001597 transcription-repair coupling factor; Provisional; Region: PRK10689 1249526001598 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1249526001599 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526001600 ATP binding site [chemical binding]; other site 1249526001601 putative Mg++ binding site [ion binding]; other site 1249526001602 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526001603 nucleotide binding region [chemical binding]; other site 1249526001604 ATP-binding site [chemical binding]; other site 1249526001605 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1249526001606 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1249526001607 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1249526001608 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1249526001609 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1249526001610 oligomeric interface; other site 1249526001611 putative active site [active] 1249526001612 homodimer interface [polypeptide binding]; other site 1249526001613 peptidase T; Region: peptidase-T; TIGR01882 1249526001614 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1249526001615 metal binding site [ion binding]; metal-binding site 1249526001616 dimer interface [polypeptide binding]; other site 1249526001617 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1249526001618 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1249526001619 putative NAD(P) binding site [chemical binding]; other site 1249526001620 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1249526001621 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526001622 ABC-ATPase subunit interface; other site 1249526001623 dimer interface [polypeptide binding]; other site 1249526001624 putative PBP binding regions; other site 1249526001625 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1249526001626 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526001627 ABC-ATPase subunit interface; other site 1249526001628 dimer interface [polypeptide binding]; other site 1249526001629 putative PBP binding regions; other site 1249526001630 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1249526001631 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1249526001632 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1249526001633 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1249526001634 metal binding site [ion binding]; metal-binding site 1249526001635 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1249526001636 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526001637 FeS/SAM binding site; other site 1249526001638 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526001639 non-specific DNA binding site [nucleotide binding]; other site 1249526001640 salt bridge; other site 1249526001641 sequence-specific DNA binding site [nucleotide binding]; other site 1249526001642 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1249526001643 TPR repeat; Region: TPR_11; pfam13414 1249526001644 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1249526001645 binding surface 1249526001646 TPR motif; other site 1249526001647 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1249526001648 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1249526001649 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1249526001650 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1249526001651 RNA binding site [nucleotide binding]; other site 1249526001652 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1249526001653 putative FMN binding site [chemical binding]; other site 1249526001654 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 1249526001655 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1249526001656 tandem repeat interface [polypeptide binding]; other site 1249526001657 oligomer interface [polypeptide binding]; other site 1249526001658 active site residues [active] 1249526001659 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1249526001660 tandem repeat interface [polypeptide binding]; other site 1249526001661 oligomer interface [polypeptide binding]; other site 1249526001662 active site residues [active] 1249526001663 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1249526001664 Na binding site [ion binding]; other site 1249526001665 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1249526001666 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1249526001667 dimer interface [polypeptide binding]; other site 1249526001668 substrate binding site [chemical binding]; other site 1249526001669 ATP binding site [chemical binding]; other site 1249526001670 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1249526001671 thiamine phosphate binding site [chemical binding]; other site 1249526001672 active site 1249526001673 pyrophosphate binding site [ion binding]; other site 1249526001674 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526001675 metabolite-proton symporter; Region: 2A0106; TIGR00883 1249526001676 putative substrate translocation pore; other site 1249526001677 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1249526001678 substrate binding site [chemical binding]; other site 1249526001679 multimerization interface [polypeptide binding]; other site 1249526001680 ATP binding site [chemical binding]; other site 1249526001681 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 1249526001682 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1249526001683 effector binding site; other site 1249526001684 active site 1249526001685 Zn binding site [ion binding]; other site 1249526001686 glycine loop; other site 1249526001687 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1249526001688 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1249526001689 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1249526001690 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249526001691 PYR/PP interface [polypeptide binding]; other site 1249526001692 dimer interface [polypeptide binding]; other site 1249526001693 TPP binding site [chemical binding]; other site 1249526001694 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249526001695 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1249526001696 TPP-binding site [chemical binding]; other site 1249526001697 dimer interface [polypeptide binding]; other site 1249526001698 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1249526001699 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1249526001700 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1249526001701 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1249526001702 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1249526001703 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 1249526001704 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1249526001705 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249526001706 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1249526001707 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1249526001708 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1249526001709 binding surface 1249526001710 TPR motif; other site 1249526001711 serine endoprotease; Provisional; Region: PRK10942 1249526001712 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249526001713 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1249526001714 protein binding site [polypeptide binding]; other site 1249526001715 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1249526001716 protein binding site [polypeptide binding]; other site 1249526001717 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1249526001718 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1249526001719 Walker A/P-loop; other site 1249526001720 ATP binding site [chemical binding]; other site 1249526001721 Q-loop/lid; other site 1249526001722 ABC transporter signature motif; other site 1249526001723 Walker B; other site 1249526001724 D-loop; other site 1249526001725 H-loop/switch region; other site 1249526001726 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1249526001727 conserved hypothetical integral membrane protein; Region: TIGR00056 1249526001728 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1249526001729 mce related protein; Region: MCE; pfam02470 1249526001730 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1249526001731 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1249526001732 anti sigma factor interaction site; other site 1249526001733 regulatory phosphorylation site [posttranslational modification]; other site 1249526001734 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1249526001735 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1249526001736 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1249526001737 hinge; other site 1249526001738 active site 1249526001739 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1249526001740 active site 1249526001741 putative DNA-binding cleft [nucleotide binding]; other site 1249526001742 dimer interface [polypeptide binding]; other site 1249526001743 hypothetical protein; Validated; Region: PRK00110 1249526001744 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1249526001745 nudix motif; other site 1249526001746 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1249526001747 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1249526001748 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1249526001749 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1249526001750 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249526001751 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1249526001752 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1249526001753 dimer interface [polypeptide binding]; other site 1249526001754 anticodon binding site; other site 1249526001755 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1249526001756 homodimer interface [polypeptide binding]; other site 1249526001757 motif 1; other site 1249526001758 active site 1249526001759 motif 2; other site 1249526001760 GAD domain; Region: GAD; pfam02938 1249526001761 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1249526001762 active site 1249526001763 motif 3; other site 1249526001764 Predicted membrane protein [Function unknown]; Region: COG2431 1249526001765 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1249526001766 active site 1249526001767 DNA polymerase IV; Validated; Region: PRK02406 1249526001768 DNA binding site [nucleotide binding] 1249526001769 heat shock protein HtpX; Provisional; Region: PRK05457 1249526001770 Predicted membrane protein [Function unknown]; Region: COG1238 1249526001771 formate transporter FocA; Region: formate_focA; TIGR04060 1249526001772 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1249526001773 Pyruvate formate lyase 1; Region: PFL1; cd01678 1249526001774 coenzyme A binding site [chemical binding]; other site 1249526001775 active site 1249526001776 catalytic residues [active] 1249526001777 glycine loop; other site 1249526001778 Virulence protein [General function prediction only]; Region: COG3943 1249526001779 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249526001780 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1249526001781 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526001782 FeS/SAM binding site; other site 1249526001783 oligopeptidase A; Provisional; Region: PRK10911 1249526001784 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1249526001785 active site 1249526001786 Zn binding site [ion binding]; other site 1249526001787 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1249526001788 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1249526001789 Prephenate dehydratase; Region: PDT; pfam00800 1249526001790 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1249526001791 putative L-Phe binding site [chemical binding]; other site 1249526001792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1249526001793 adenylate kinase; Reviewed; Region: adk; PRK00279 1249526001794 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 1249526001795 AMP-binding site [chemical binding]; other site 1249526001796 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1249526001797 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1249526001798 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1249526001799 ligand-binding site [chemical binding]; other site 1249526001800 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1249526001801 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249526001802 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526001803 ABC-ATPase subunit interface; other site 1249526001804 dimer interface [polypeptide binding]; other site 1249526001805 putative PBP binding regions; other site 1249526001806 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249526001807 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526001808 ABC-ATPase subunit interface; other site 1249526001809 dimer interface [polypeptide binding]; other site 1249526001810 putative PBP binding regions; other site 1249526001811 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249526001812 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249526001813 intersubunit interface [polypeptide binding]; other site 1249526001814 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249526001815 Walker A/P-loop; other site 1249526001816 ATP binding site [chemical binding]; other site 1249526001817 ABC transporter; Region: ABC_tran; pfam00005 1249526001818 Q-loop/lid; other site 1249526001819 ABC transporter signature motif; other site 1249526001820 Walker B; other site 1249526001821 D-loop; other site 1249526001822 H-loop/switch region; other site 1249526001823 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1249526001824 AmpG-like permease; Region: 2A0125; TIGR00901 1249526001825 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1249526001826 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1249526001827 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1249526001828 substrate binding pocket [chemical binding]; other site 1249526001829 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1249526001830 B12 binding site [chemical binding]; other site 1249526001831 cobalt ligand [ion binding]; other site 1249526001832 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1249526001833 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1249526001834 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1249526001835 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1249526001836 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249526001837 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526001838 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526001839 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249526001840 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526001841 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1249526001842 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249526001843 Walker A/P-loop; other site 1249526001844 ATP binding site [chemical binding]; other site 1249526001845 Q-loop/lid; other site 1249526001846 ABC transporter signature motif; other site 1249526001847 Walker B; other site 1249526001848 D-loop; other site 1249526001849 H-loop/switch region; other site 1249526001850 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249526001851 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1249526001852 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526001853 putative PBP binding regions; other site 1249526001854 ABC-ATPase subunit interface; other site 1249526001855 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1249526001856 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1249526001857 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1249526001858 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1249526001859 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249526001860 intersubunit interface [polypeptide binding]; other site 1249526001861 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1249526001862 FAD binding site [chemical binding]; other site 1249526001863 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1249526001864 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1249526001865 NAD binding site [chemical binding]; other site 1249526001866 homodimer interface [polypeptide binding]; other site 1249526001867 active site 1249526001868 substrate binding site [chemical binding]; other site 1249526001869 Trm112p-like protein; Region: Trm112p; cl01066 1249526001870 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1249526001871 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1249526001872 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1249526001873 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526001874 non-specific DNA binding site [nucleotide binding]; other site 1249526001875 salt bridge; other site 1249526001876 sequence-specific DNA binding site [nucleotide binding]; other site 1249526001877 Fic family protein [Function unknown]; Region: COG3177 1249526001878 Fic/DOC family; Region: Fic; pfam02661 1249526001879 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1249526001880 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1249526001881 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526001882 Walker A motif; other site 1249526001883 ATP binding site [chemical binding]; other site 1249526001884 Walker B motif; other site 1249526001885 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1249526001886 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1249526001887 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1249526001888 oligomer interface [polypeptide binding]; other site 1249526001889 active site residues [active] 1249526001890 Fe-S metabolism associated domain; Region: SufE; cl00951 1249526001891 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249526001892 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526001893 S-adenosylmethionine binding site [chemical binding]; other site 1249526001894 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1249526001895 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1249526001896 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1249526001897 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1249526001898 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1249526001899 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1249526001900 glutamine binding [chemical binding]; other site 1249526001901 catalytic triad [active] 1249526001902 anthranilate synthase component I; Provisional; Region: PRK13564 1249526001903 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1249526001904 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1249526001905 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1249526001906 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1249526001907 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1249526001908 RNA binding surface [nucleotide binding]; other site 1249526001909 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1249526001910 probable active site [active] 1249526001911 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1249526001912 transmembrane helices; other site 1249526001913 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249526001914 TrkA-C domain; Region: TrkA_C; pfam02080 1249526001915 TrkA-C domain; Region: TrkA_C; pfam02080 1249526001916 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249526001917 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1249526001918 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249526001919 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1249526001920 trimer interface [polypeptide binding]; other site 1249526001921 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249526001922 trimer interface [polypeptide binding]; other site 1249526001923 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249526001924 trimer interface [polypeptide binding]; other site 1249526001925 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249526001926 trimer interface [polypeptide binding]; other site 1249526001927 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1249526001928 YadA-like C-terminal region; Region: YadA; pfam03895 1249526001929 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1249526001930 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1249526001931 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1249526001932 Colicin pore forming domain; Region: Colicin; pfam01024 1249526001933 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1249526001934 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1249526001935 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1249526001936 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1249526001937 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1249526001938 primosomal replication protein N; Provisional; Region: PRK02801 1249526001939 generic binding surface II; other site 1249526001940 generic binding surface I; other site 1249526001941 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1249526001942 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1249526001943 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1249526001944 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1249526001945 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1249526001946 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1249526001947 active site 1249526001948 catalytic site [active] 1249526001949 substrate binding site [chemical binding]; other site 1249526001950 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1249526001951 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249526001952 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249526001953 ABC transporter; Region: ABC_tran_2; pfam12848 1249526001954 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249526001955 electron transport complex protein RsxA; Provisional; Region: PRK05151 1249526001956 ferredoxin; Provisional; Region: PRK08764 1249526001957 Putative Fe-S cluster; Region: FeS; pfam04060 1249526001958 4Fe-4S binding domain; Region: Fer4; pfam00037 1249526001959 4Fe-4S binding domain; Region: Fer4; cl02805 1249526001960 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1249526001961 SLBB domain; Region: SLBB; pfam10531 1249526001962 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1249526001963 Predicted membrane protein [Function unknown]; Region: COG2860 1249526001964 UPF0126 domain; Region: UPF0126; pfam03458 1249526001965 UPF0126 domain; Region: UPF0126; pfam03458 1249526001966 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1249526001967 electron transport complex protein RnfG; Validated; Region: PRK01908 1249526001968 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1249526001969 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1249526001970 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1249526001971 putative acyl-acceptor binding pocket; other site 1249526001972 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526001973 active site 1249526001974 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1249526001975 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526001976 Walker A motif; other site 1249526001977 ATP binding site [chemical binding]; other site 1249526001978 Walker B motif; other site 1249526001979 arginine finger; other site 1249526001980 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1249526001981 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1249526001982 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1249526001983 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1249526001984 Walker A/P-loop; other site 1249526001985 ATP binding site [chemical binding]; other site 1249526001986 Q-loop/lid; other site 1249526001987 ABC transporter signature motif; other site 1249526001988 Walker B; other site 1249526001989 D-loop; other site 1249526001990 H-loop/switch region; other site 1249526001991 inner membrane transport permease; Provisional; Region: PRK15066 1249526001992 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1249526001993 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1249526001994 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249526001995 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1249526001996 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526001997 dimer interface [polypeptide binding]; other site 1249526001998 conserved gate region; other site 1249526001999 putative PBP binding loops; other site 1249526002000 ABC-ATPase subunit interface; other site 1249526002001 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1249526002002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526002003 Walker A/P-loop; other site 1249526002004 ATP binding site [chemical binding]; other site 1249526002005 Q-loop/lid; other site 1249526002006 ABC transporter signature motif; other site 1249526002007 Walker B; other site 1249526002008 D-loop; other site 1249526002009 H-loop/switch region; other site 1249526002010 TOBE domain; Region: TOBE; cl01440 1249526002011 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1249526002012 putative coenzyme Q binding site [chemical binding]; other site 1249526002013 hypothetical protein; Validated; Region: PRK01777 1249526002014 benzoate transport; Region: 2A0115; TIGR00895 1249526002015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526002016 putative substrate translocation pore; other site 1249526002017 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526002018 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1249526002019 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1249526002020 metal binding site [ion binding]; metal-binding site 1249526002021 dimer interface [polypeptide binding]; other site 1249526002022 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1249526002023 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1249526002024 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249526002025 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526002026 active site 1249526002027 Guanylate kinase; Region: Guanylate_kin; pfam00625 1249526002028 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 1249526002029 catalytic site [active] 1249526002030 G-X2-G-X-G-K; other site 1249526002031 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1249526002032 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1249526002033 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1249526002034 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1249526002035 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1249526002036 molybdopterin cofactor binding site; other site 1249526002037 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 1249526002038 putative molybdopterin cofactor binding site [chemical binding]; other site 1249526002039 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1249526002040 putative molybdopterin cofactor binding site; other site 1249526002041 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1249526002042 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1249526002043 4Fe-4S binding domain; Region: Fer4; pfam00037 1249526002044 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1249526002045 PIN domain; Region: PIN_3; cl17397 1249526002046 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1249526002047 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1249526002048 dimer interface [polypeptide binding]; other site 1249526002049 phosphorylation site [posttranslational modification] 1249526002050 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526002051 ATP binding site [chemical binding]; other site 1249526002052 Mg2+ binding site [ion binding]; other site 1249526002053 G-X-G motif; other site 1249526002054 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1249526002055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1249526002056 active site 1249526002057 phosphorylation site [posttranslational modification] 1249526002058 intermolecular recognition site; other site 1249526002059 dimerization interface [polypeptide binding]; other site 1249526002060 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1249526002061 DNA binding residues [nucleotide binding] 1249526002062 dimerization interface [polypeptide binding]; other site 1249526002063 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1249526002064 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1249526002065 Ligand Binding Site [chemical binding]; other site 1249526002066 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1249526002067 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526002068 S-adenosylmethionine binding site [chemical binding]; other site 1249526002069 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1249526002070 DNA gyrase subunit A; Validated; Region: PRK05560 1249526002071 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1249526002072 CAP-like domain; other site 1249526002073 active site 1249526002074 primary dimer interface [polypeptide binding]; other site 1249526002075 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249526002076 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249526002077 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249526002078 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249526002079 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249526002080 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1249526002081 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1249526002082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526002083 Walker A/P-loop; other site 1249526002084 ATP binding site [chemical binding]; other site 1249526002085 ABC transporter signature motif; other site 1249526002086 Walker B; other site 1249526002087 D-loop; other site 1249526002088 H-loop/switch region; other site 1249526002089 ABC transporter; Region: ABC_tran_2; pfam12848 1249526002090 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249526002091 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1249526002092 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1249526002093 putative ATP binding site [chemical binding]; other site 1249526002094 putative substrate interface [chemical binding]; other site 1249526002095 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1249526002096 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1249526002097 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1249526002098 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1249526002099 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1249526002100 putative active site [active] 1249526002101 putative metal-binding site [ion binding]; other site 1249526002102 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1249526002103 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1249526002104 Walker A/P-loop; other site 1249526002105 ATP binding site [chemical binding]; other site 1249526002106 Q-loop/lid; other site 1249526002107 ABC transporter signature motif; other site 1249526002108 Walker B; other site 1249526002109 D-loop; other site 1249526002110 H-loop/switch region; other site 1249526002111 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1249526002112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526002113 dimer interface [polypeptide binding]; other site 1249526002114 conserved gate region; other site 1249526002115 ABC-ATPase subunit interface; other site 1249526002116 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1249526002117 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1249526002118 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1249526002119 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1249526002120 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1249526002121 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1249526002122 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1249526002123 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1249526002124 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1249526002125 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1249526002126 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1249526002127 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1249526002128 nucleophile elbow; other site 1249526002129 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1249526002130 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 1249526002131 CAS motifs; other site 1249526002132 active site 1249526002133 hypothetical protein; Provisional; Region: PRK04860 1249526002134 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1249526002135 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1249526002136 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249526002137 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1249526002138 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249526002139 AzlC protein; Region: AzlC; pfam03591 1249526002140 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1249526002141 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249526002142 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1249526002143 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1249526002144 Protein export membrane protein; Region: SecD_SecF; pfam02355 1249526002145 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1249526002146 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1249526002147 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1249526002148 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1249526002149 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1249526002150 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1249526002151 active site 1249526002152 catalytic residues [active] 1249526002153 galactokinase; Provisional; Region: PRK05101 1249526002154 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1249526002155 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249526002156 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1249526002157 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1249526002158 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1249526002159 dimer interface [polypeptide binding]; other site 1249526002160 active site 1249526002161 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1249526002162 phosphodiesterase YaeI; Provisional; Region: PRK11340 1249526002163 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1249526002164 putative active site [active] 1249526002165 putative metal binding site [ion binding]; other site 1249526002166 Predicted permeases [General function prediction only]; Region: COG0679 1249526002167 peptide chain release factor 2; Provisional; Region: PRK08787 1249526002168 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1249526002169 RF-1 domain; Region: RF-1; pfam00472 1249526002170 WYL domain; Region: WYL; pfam13280 1249526002171 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1249526002172 active site 1249526002173 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1249526002174 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526002175 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526002176 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526002177 Integrase core domain; Region: rve; pfam00665 1249526002178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526002179 Integrase core domain; Region: rve_3; pfam13683 1249526002180 selenophosphate synthetase; Provisional; Region: PRK00943 1249526002181 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1249526002182 dimerization interface [polypeptide binding]; other site 1249526002183 putative ATP binding site [chemical binding]; other site 1249526002184 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1249526002185 nudix motif; other site 1249526002186 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1249526002187 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1249526002188 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1249526002189 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 1249526002190 active site 1249526002191 FMN binding site [chemical binding]; other site 1249526002192 substrate binding site [chemical binding]; other site 1249526002193 catalytic residues [active] 1249526002194 homodimer interface [polypeptide binding]; other site 1249526002195 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1249526002196 enolase; Provisional; Region: eno; PRK00077 1249526002197 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1249526002198 dimer interface [polypeptide binding]; other site 1249526002199 metal binding site [ion binding]; metal-binding site 1249526002200 substrate binding pocket [chemical binding]; other site 1249526002201 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1249526002202 beta-hexosaminidase; Provisional; Region: PRK05337 1249526002203 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1249526002204 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1249526002205 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1249526002206 putative DNA-binding cleft [nucleotide binding]; other site 1249526002207 putative DNA clevage site; other site 1249526002208 molecular lever; other site 1249526002209 LexA repressor; Validated; Region: PRK00215 1249526002210 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1249526002211 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1249526002212 Catalytic site [active] 1249526002213 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1249526002214 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1249526002215 putative acyl-acceptor binding pocket; other site 1249526002216 Predicted membrane protein [Function unknown]; Region: COG1584 1249526002217 Cupin; Region: Cupin_6; pfam12852 1249526002218 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526002219 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249526002220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526002221 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1249526002222 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1249526002223 active site residue [active] 1249526002224 Predicted membrane protein [Function unknown]; Region: COG3059 1249526002225 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1249526002226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249526002227 ATP-grasp domain; Region: ATP-grasp; pfam02222 1249526002228 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1249526002229 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1249526002230 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1249526002231 active site turn [active] 1249526002232 phosphorylation site [posttranslational modification] 1249526002233 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1249526002234 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1249526002235 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1249526002236 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1249526002237 YccA-like proteins; Region: YccA_like; cd10433 1249526002238 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1249526002239 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1249526002240 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1249526002241 GIY-YIG motif/motif A; other site 1249526002242 active site 1249526002243 catalytic site [active] 1249526002244 putative DNA binding site [nucleotide binding]; other site 1249526002245 metal binding site [ion binding]; metal-binding site 1249526002246 UvrB/uvrC motif; Region: UVR; pfam02151 1249526002247 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1249526002248 Helix-hairpin-helix motif; Region: HHH; pfam00633 1249526002249 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1249526002250 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1249526002251 23S rRNA binding site [nucleotide binding]; other site 1249526002252 L21 binding site [polypeptide binding]; other site 1249526002253 L13 binding site [polypeptide binding]; other site 1249526002254 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1249526002255 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1249526002256 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1249526002257 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1249526002258 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526002259 ATP binding site [chemical binding]; other site 1249526002260 putative Mg++ binding site [ion binding]; other site 1249526002261 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526002262 nucleotide binding region [chemical binding]; other site 1249526002263 ATP-binding site [chemical binding]; other site 1249526002264 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1249526002265 HRDC domain; Region: HRDC; pfam00570 1249526002266 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1249526002267 putative iron binding site [ion binding]; other site 1249526002268 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1249526002269 UGMP family protein; Validated; Region: PRK09604 1249526002270 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1249526002271 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1249526002272 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1249526002273 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1249526002274 RNA binding surface [nucleotide binding]; other site 1249526002275 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249526002276 active site 1249526002277 Entericidin EcnA/B family; Region: Entericidin; cl02322 1249526002278 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1249526002279 30S subunit binding site; other site 1249526002280 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1249526002281 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1249526002282 putative acyl-acceptor binding pocket; other site 1249526002283 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1249526002284 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1249526002285 dimer interface [polypeptide binding]; other site 1249526002286 active site 1249526002287 catalytic residue [active] 1249526002288 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1249526002289 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1249526002290 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1249526002291 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1249526002292 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1249526002293 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1249526002294 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1249526002295 purine monophosphate binding site [chemical binding]; other site 1249526002296 dimer interface [polypeptide binding]; other site 1249526002297 putative catalytic residues [active] 1249526002298 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1249526002299 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1249526002300 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1249526002301 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1249526002302 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1249526002303 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1249526002304 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1249526002305 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1249526002306 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1249526002307 active site 1249526002308 multimer interface [polypeptide binding]; other site 1249526002309 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1249526002310 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1249526002311 active site 1249526002312 HIGH motif; other site 1249526002313 KMSKS motif; other site 1249526002314 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1249526002315 tRNA binding surface [nucleotide binding]; other site 1249526002316 anticodon binding site; other site 1249526002317 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1249526002318 dimer interface [polypeptide binding]; other site 1249526002319 putative tRNA-binding site [nucleotide binding]; other site 1249526002320 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1249526002321 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1249526002322 active site 1249526002323 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1249526002324 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1249526002325 RNA binding surface [nucleotide binding]; other site 1249526002326 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1249526002327 active site 1249526002328 uracil binding [chemical binding]; other site 1249526002329 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526002330 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1249526002331 putative substrate translocation pore; other site 1249526002332 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1249526002333 TRAM domain; Region: TRAM; pfam01938 1249526002334 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526002335 S-adenosylmethionine binding site [chemical binding]; other site 1249526002336 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1249526002337 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1249526002338 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1249526002339 ATP-dependent helicase HepA; Validated; Region: PRK04914 1249526002340 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526002341 ATP binding site [chemical binding]; other site 1249526002342 putative Mg++ binding site [ion binding]; other site 1249526002343 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526002344 nucleotide binding region [chemical binding]; other site 1249526002345 ATP-binding site [chemical binding]; other site 1249526002346 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1249526002347 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1249526002348 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1249526002349 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249526002350 active site 1249526002351 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1249526002352 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1249526002353 amidase catalytic site [active] 1249526002354 Zn binding residues [ion binding]; other site 1249526002355 substrate binding site [chemical binding]; other site 1249526002356 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1249526002357 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526002358 active site 1249526002359 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1249526002360 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1249526002361 THF binding site; other site 1249526002362 substrate binding site [chemical binding]; other site 1249526002363 zinc-binding site [ion binding]; other site 1249526002364 cystathionine beta-lyase; Provisional; Region: PRK08114 1249526002365 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1249526002366 homodimer interface [polypeptide binding]; other site 1249526002367 substrate-cofactor binding pocket; other site 1249526002368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526002369 catalytic residue [active] 1249526002370 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1249526002371 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1249526002372 fatty acid metabolism regulator; Provisional; Region: PRK04984 1249526002373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249526002374 DNA-binding site [nucleotide binding]; DNA binding site 1249526002375 FadR C-terminal domain; Region: FadR_C; pfam07840 1249526002376 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1249526002377 PhoH-like protein; Region: PhoH; pfam02562 1249526002378 transketolase; Reviewed; Region: PRK12753 1249526002379 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1249526002380 TPP-binding site [chemical binding]; other site 1249526002381 dimer interface [polypeptide binding]; other site 1249526002382 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1249526002383 PYR/PP interface [polypeptide binding]; other site 1249526002384 dimer interface [polypeptide binding]; other site 1249526002385 TPP binding site [chemical binding]; other site 1249526002386 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249526002387 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1249526002388 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249526002389 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1249526002390 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249526002391 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1249526002392 putative active site [active] 1249526002393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526002394 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1249526002395 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1249526002396 putative dimerization interface [polypeptide binding]; other site 1249526002397 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1249526002398 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1249526002399 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526002400 Walker A motif; other site 1249526002401 ATP binding site [chemical binding]; other site 1249526002402 Walker B motif; other site 1249526002403 arginine finger; other site 1249526002404 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1249526002405 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1249526002406 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1249526002407 catalytic motif [active] 1249526002408 Zn binding site [ion binding]; other site 1249526002409 RibD C-terminal domain; Region: RibD_C; cl17279 1249526002410 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1249526002411 Lumazine binding domain; Region: Lum_binding; pfam00677 1249526002412 Lumazine binding domain; Region: Lum_binding; pfam00677 1249526002413 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1249526002414 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1249526002415 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1249526002416 dimerization interface [polypeptide binding]; other site 1249526002417 active site 1249526002418 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1249526002419 homopentamer interface [polypeptide binding]; other site 1249526002420 active site 1249526002421 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1249526002422 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1249526002423 putative active site [active] 1249526002424 catalytic triad [active] 1249526002425 putative dimer interface [polypeptide binding]; other site 1249526002426 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1249526002427 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1249526002428 Transporter associated domain; Region: CorC_HlyC; smart01091 1249526002429 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1249526002430 hypothetical protein; Provisional; Region: PRK03641 1249526002431 polysaccharide export protein Wza; Provisional; Region: PRK15078 1249526002432 methionine aminopeptidase; Provisional; Region: PLN03158 1249526002433 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1249526002434 endonuclease IV; Provisional; Region: PRK01060 1249526002435 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1249526002436 AP (apurinic/apyrimidinic) site pocket; other site 1249526002437 DNA interaction; other site 1249526002438 Metal-binding active site; metal-binding site 1249526002439 NlpC/P60 family; Region: NLPC_P60; pfam00877 1249526002440 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1249526002441 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1249526002442 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1249526002443 ligand binding site [chemical binding]; other site 1249526002444 active site 1249526002445 UGI interface [polypeptide binding]; other site 1249526002446 catalytic site [active] 1249526002447 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1249526002448 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1249526002449 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1249526002450 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1249526002451 putative active site [active] 1249526002452 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249526002453 Helicase associated domain (HA2); Region: HA2; pfam04408 1249526002454 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1249526002455 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1249526002456 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1249526002457 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526002458 ATP binding site [chemical binding]; other site 1249526002459 putative Mg++ binding site [ion binding]; other site 1249526002460 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526002461 nucleotide binding region [chemical binding]; other site 1249526002462 ATP-binding site [chemical binding]; other site 1249526002463 Predicted membrane protein [Function unknown]; Region: COG2707 1249526002464 GrpE; Region: GrpE; pfam01025 1249526002465 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1249526002466 dimer interface [polypeptide binding]; other site 1249526002467 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1249526002468 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1249526002469 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1249526002470 multidrug efflux protein; Reviewed; Region: PRK01766 1249526002471 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1249526002472 cation binding site [ion binding]; other site 1249526002473 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1249526002474 Part of AAA domain; Region: AAA_19; pfam13245 1249526002475 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1249526002476 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1249526002477 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1249526002478 aminopeptidase B; Provisional; Region: PRK05015 1249526002479 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1249526002480 interface (dimer of trimers) [polypeptide binding]; other site 1249526002481 Substrate-binding/catalytic site; other site 1249526002482 Zn-binding sites [ion binding]; other site 1249526002483 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1249526002484 Sodium Bile acid symporter family; Region: SBF; cl17470 1249526002485 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1249526002486 Sodium Bile acid symporter family; Region: SBF; cl17470 1249526002487 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1249526002488 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249526002489 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249526002490 putative hydrolase; Provisional; Region: PRK10976 1249526002491 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526002492 active site 1249526002493 motif I; other site 1249526002494 motif II; other site 1249526002495 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249526002496 2-isopropylmalate synthase; Validated; Region: PRK00915 1249526002497 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1249526002498 active site 1249526002499 catalytic residues [active] 1249526002500 metal binding site [ion binding]; metal-binding site 1249526002501 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1249526002502 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1249526002503 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249526002504 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1249526002505 DNA binding residues [nucleotide binding] 1249526002506 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1249526002507 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1249526002508 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1249526002509 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1249526002510 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1249526002511 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1249526002512 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1249526002513 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1249526002514 acyl-activating enzyme (AAE) consensus motif; other site 1249526002515 putative AMP binding site [chemical binding]; other site 1249526002516 putative active site [active] 1249526002517 putative CoA binding site [chemical binding]; other site 1249526002518 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526002519 active site 1249526002520 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1249526002521 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526002522 S-adenosylmethionine binding site [chemical binding]; other site 1249526002523 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1249526002524 SurA N-terminal domain; Region: SurA_N; pfam09312 1249526002525 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249526002526 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1249526002527 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526002528 active site 1249526002529 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1249526002530 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1249526002531 putative ribose interaction site [chemical binding]; other site 1249526002532 putative ADP binding site [chemical binding]; other site 1249526002533 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1249526002534 active site 1249526002535 nucleotide binding site [chemical binding]; other site 1249526002536 HIGH motif; other site 1249526002537 KMSKS motif; other site 1249526002538 GTP-binding protein Der; Reviewed; Region: PRK00093 1249526002539 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1249526002540 G1 box; other site 1249526002541 GTP/Mg2+ binding site [chemical binding]; other site 1249526002542 Switch I region; other site 1249526002543 G2 box; other site 1249526002544 Switch II region; other site 1249526002545 G3 box; other site 1249526002546 G4 box; other site 1249526002547 G5 box; other site 1249526002548 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1249526002549 G1 box; other site 1249526002550 GTP/Mg2+ binding site [chemical binding]; other site 1249526002551 Switch I region; other site 1249526002552 G2 box; other site 1249526002553 G3 box; other site 1249526002554 Switch II region; other site 1249526002555 G4 box; other site 1249526002556 G5 box; other site 1249526002557 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1249526002558 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1249526002559 tRNA; other site 1249526002560 putative tRNA binding site [nucleotide binding]; other site 1249526002561 putative NADP binding site [chemical binding]; other site 1249526002562 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1249526002563 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1249526002564 HD domain; Region: HD_4; pfam13328 1249526002565 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1249526002566 synthetase active site [active] 1249526002567 NTP binding site [chemical binding]; other site 1249526002568 metal binding site [ion binding]; metal-binding site 1249526002569 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1249526002570 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1249526002571 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1249526002572 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1249526002573 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1249526002574 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1249526002575 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1249526002576 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1249526002577 L-aspartate oxidase; Provisional; Region: PRK06175 1249526002578 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1249526002579 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526002580 Walker A/P-loop; other site 1249526002581 ATP binding site [chemical binding]; other site 1249526002582 Q-loop/lid; other site 1249526002583 ABC transporter signature motif; other site 1249526002584 Walker B; other site 1249526002585 D-loop; other site 1249526002586 H-loop/switch region; other site 1249526002587 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249526002588 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1249526002589 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249526002590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526002591 dimer interface [polypeptide binding]; other site 1249526002592 conserved gate region; other site 1249526002593 putative PBP binding loops; other site 1249526002594 ABC-ATPase subunit interface; other site 1249526002595 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1249526002596 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526002597 Walker A/P-loop; other site 1249526002598 ATP binding site [chemical binding]; other site 1249526002599 Q-loop/lid; other site 1249526002600 ABC transporter signature motif; other site 1249526002601 Walker B; other site 1249526002602 D-loop; other site 1249526002603 H-loop/switch region; other site 1249526002604 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249526002605 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249526002606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526002607 dimer interface [polypeptide binding]; other site 1249526002608 conserved gate region; other site 1249526002609 putative PBP binding loops; other site 1249526002610 ABC-ATPase subunit interface; other site 1249526002611 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526002612 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1249526002613 HemN family oxidoreductase; Provisional; Region: PRK05660 1249526002614 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526002615 FeS/SAM binding site; other site 1249526002616 HemN C-terminal domain; Region: HemN_C; pfam06969 1249526002617 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249526002618 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249526002619 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1249526002620 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1249526002621 catalytic triad [active] 1249526002622 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1249526002623 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526002624 active site 1249526002625 motif I; other site 1249526002626 motif II; other site 1249526002627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1249526002628 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1249526002629 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1249526002630 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1249526002631 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1249526002632 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1249526002633 putative active site [active] 1249526002634 HemK family putative methylases; Region: hemK_fam; TIGR00536 1249526002635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526002636 S-adenosylmethionine binding site [chemical binding]; other site 1249526002637 hypothetical protein; Provisional; Region: PRK04946 1249526002638 Smr domain; Region: Smr; pfam01713 1249526002639 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1249526002640 putative deacylase active site [active] 1249526002641 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1249526002642 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1249526002643 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1249526002644 DNA binding site [nucleotide binding] 1249526002645 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1249526002646 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1249526002647 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526002648 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526002649 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526002650 Integrase core domain; Region: rve; pfam00665 1249526002651 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526002652 Integrase core domain; Region: rve_3; pfam13683 1249526002653 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1249526002654 active site 1249526002655 phosphate binding residues; other site 1249526002656 catalytic residues [active] 1249526002657 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1249526002658 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1249526002659 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249526002660 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1249526002661 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1249526002662 GTP binding site; other site 1249526002663 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1249526002664 Walker A motif; other site 1249526002665 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 1249526002666 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1249526002667 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1249526002668 catalytic residues [active] 1249526002669 hinge region; other site 1249526002670 alpha helical domain; other site 1249526002671 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249526002672 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249526002673 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1249526002674 Protein of unknown function (DUF406); Region: DUF406; pfam04175 1249526002675 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526002676 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526002677 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526002678 Integrase core domain; Region: rve; pfam00665 1249526002679 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526002680 Integrase core domain; Region: rve_3; pfam13683 1249526002681 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526002682 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526002683 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526002684 Integrase core domain; Region: rve; pfam00665 1249526002685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526002686 Integrase core domain; Region: rve_3; pfam13683 1249526002687 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1249526002688 AAA domain; Region: AAA_31; pfam13614 1249526002689 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1249526002690 P-loop; other site 1249526002691 Magnesium ion binding site [ion binding]; other site 1249526002692 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1249526002693 Magnesium ion binding site [ion binding]; other site 1249526002694 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1249526002695 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1249526002696 catalytic residue [active] 1249526002697 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1249526002698 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1249526002699 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526002700 Walker A/P-loop; other site 1249526002701 ATP binding site [chemical binding]; other site 1249526002702 Q-loop/lid; other site 1249526002703 ABC transporter signature motif; other site 1249526002704 Walker B; other site 1249526002705 D-loop; other site 1249526002706 H-loop/switch region; other site 1249526002707 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1249526002708 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1249526002709 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526002710 Walker A/P-loop; other site 1249526002711 ATP binding site [chemical binding]; other site 1249526002712 Q-loop/lid; other site 1249526002713 ABC transporter signature motif; other site 1249526002714 Walker B; other site 1249526002715 D-loop; other site 1249526002716 H-loop/switch region; other site 1249526002717 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249526002718 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1249526002719 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1249526002720 active site 1249526002721 zinc binding site [ion binding]; other site 1249526002722 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1249526002723 AAA domain; Region: AAA_26; pfam13500 1249526002724 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1249526002725 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526002726 S-adenosylmethionine binding site [chemical binding]; other site 1249526002727 Protein of unknown function (DUF452); Region: DUF452; pfam04301 1249526002728 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1249526002729 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1249526002730 substrate-cofactor binding pocket; other site 1249526002731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526002732 catalytic residue [active] 1249526002733 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 1249526002734 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1249526002735 inhibitor-cofactor binding pocket; inhibition site 1249526002736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526002737 catalytic residue [active] 1249526002738 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1249526002739 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1249526002740 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249526002741 gamma-glutamyl kinase; Provisional; Region: PRK05429 1249526002742 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1249526002743 nucleotide binding site [chemical binding]; other site 1249526002744 homotetrameric interface [polypeptide binding]; other site 1249526002745 putative phosphate binding site [ion binding]; other site 1249526002746 putative allosteric binding site; other site 1249526002747 PUA domain; Region: PUA; pfam01472 1249526002748 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1249526002749 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1249526002750 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1249526002751 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249526002752 Putative helicase; Region: TraI_2; pfam07514 1249526002753 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1249526002754 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1249526002755 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526002756 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1249526002757 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1249526002758 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1249526002759 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1249526002760 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1249526002761 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526002762 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526002763 Integrase core domain; Region: rve; pfam00665 1249526002764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526002765 Integrase core domain; Region: rve_3; pfam13683 1249526002766 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1249526002767 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1249526002768 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249526002769 Putative helicase; Region: TraI_2; pfam07514 1249526002770 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1249526002771 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1249526002772 active site 1249526002773 catalytic residues [active] 1249526002774 DNA binding site [nucleotide binding] 1249526002775 Int/Topo IB signature motif; other site 1249526002776 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1249526002777 ATP binding site [chemical binding]; other site 1249526002778 substrate interface [chemical binding]; other site 1249526002779 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1249526002780 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1249526002781 Walker A/P-loop; other site 1249526002782 ATP binding site [chemical binding]; other site 1249526002783 Q-loop/lid; other site 1249526002784 ABC transporter signature motif; other site 1249526002785 Walker B; other site 1249526002786 D-loop; other site 1249526002787 H-loop/switch region; other site 1249526002788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526002789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249526002790 putative substrate translocation pore; other site 1249526002791 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1249526002792 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1249526002793 dimer interface [polypeptide binding]; other site 1249526002794 phosphorylation site [posttranslational modification] 1249526002795 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526002796 ATP binding site [chemical binding]; other site 1249526002797 Mg2+ binding site [ion binding]; other site 1249526002798 G-X-G motif; other site 1249526002799 Response regulator receiver domain; Region: Response_reg; pfam00072 1249526002800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1249526002801 active site 1249526002802 phosphorylation site [posttranslational modification] 1249526002803 intermolecular recognition site; other site 1249526002804 dimerization interface [polypeptide binding]; other site 1249526002805 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1249526002806 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1249526002807 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1249526002808 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1249526002809 DNA binding site [nucleotide binding] 1249526002810 active site 1249526002811 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1249526002812 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1249526002813 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1249526002814 Rrf2 family protein; Region: rrf2_super; TIGR00738 1249526002815 cysteine desulfurase; Provisional; Region: PRK14012 1249526002816 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1249526002817 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249526002818 catalytic residue [active] 1249526002819 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1249526002820 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1249526002821 trimerization site [polypeptide binding]; other site 1249526002822 active site 1249526002823 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1249526002824 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1249526002825 DnaJ domain; Region: DnaJ; pfam00226 1249526002826 HSP70 interaction site [polypeptide binding]; other site 1249526002827 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1249526002828 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 1249526002829 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1249526002830 putative active site [active] 1249526002831 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1249526002832 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1249526002833 nucleotide binding site [chemical binding]; other site 1249526002834 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1249526002835 SBD interface [polypeptide binding]; other site 1249526002836 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1249526002837 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1249526002838 catalytic loop [active] 1249526002839 iron binding site [ion binding]; other site 1249526002840 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1249526002841 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1249526002842 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1249526002843 gating phenylalanine in ion channel; other site 1249526002844 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1249526002845 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 1249526002846 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1249526002847 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249526002848 Zn2+ binding site [ion binding]; other site 1249526002849 Mg2+ binding site [ion binding]; other site 1249526002850 endonuclease III; Provisional; Region: PRK10702 1249526002851 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1249526002852 minor groove reading motif; other site 1249526002853 helix-hairpin-helix signature motif; other site 1249526002854 substrate binding pocket [chemical binding]; other site 1249526002855 active site 1249526002856 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1249526002857 hypothetical protein; Provisional; Region: PRK10621 1249526002858 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1249526002859 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1249526002860 gamma-glutamyl kinase; Provisional; Region: PRK05429 1249526002861 putative phosphate binding site [ion binding]; other site 1249526002862 putative allosteric binding site; other site 1249526002863 homotetrameric interface [polypeptide binding]; other site 1249526002864 nucleotide binding site [chemical binding]; other site 1249526002865 PUA domain; Region: PUA; pfam01472 1249526002866 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1249526002867 nucleotide binding site [chemical binding]; other site 1249526002868 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1249526002869 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1249526002870 folate binding site [chemical binding]; other site 1249526002871 NADP+ binding site [chemical binding]; other site 1249526002872 DNA repair protein RadA; Provisional; Region: PRK11823 1249526002873 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1249526002874 Walker A motif/ATP binding site; other site 1249526002875 ATP binding site [chemical binding]; other site 1249526002876 Walker B motif; other site 1249526002877 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1249526002878 putative major pilin subunit; Provisional; Region: PRK10574 1249526002879 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1249526002880 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1249526002881 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249526002882 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1249526002883 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1249526002884 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 1249526002885 CoA-binding site [chemical binding]; other site 1249526002886 ATP-binding [chemical binding]; other site 1249526002887 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1249526002888 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1249526002889 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1249526002890 Lipopolysaccharide-assembly; Region: LptE; cl01125 1249526002891 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1249526002892 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1249526002893 HIGH motif; other site 1249526002894 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1249526002895 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249526002896 active site 1249526002897 KMSKS motif; other site 1249526002898 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1249526002899 tRNA binding surface [nucleotide binding]; other site 1249526002900 seryl-tRNA synthetase; Provisional; Region: PRK05431 1249526002901 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1249526002902 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1249526002903 dimer interface [polypeptide binding]; other site 1249526002904 active site 1249526002905 motif 1; other site 1249526002906 motif 2; other site 1249526002907 motif 3; other site 1249526002908 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 1249526002909 SmpB-tmRNA interface; other site 1249526002910 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 1249526002911 salt bridge; other site 1249526002912 non-specific DNA binding site [nucleotide binding]; other site 1249526002913 sequence-specific DNA binding site [nucleotide binding]; other site 1249526002914 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1249526002915 YcjX-like family, DUF463; Region: DUF463; pfam04317 1249526002916 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1249526002917 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1249526002918 putative active site [active] 1249526002919 putative metal binding residues [ion binding]; other site 1249526002920 signature motif; other site 1249526002921 putative triphosphate binding site [ion binding]; other site 1249526002922 hypothetical protein; Provisional; Region: PRK05114 1249526002923 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1249526002924 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1249526002925 probable active site [active] 1249526002926 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1249526002927 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1249526002928 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1249526002929 active site 1249526002930 ribulose/triose binding site [chemical binding]; other site 1249526002931 phosphate binding site [ion binding]; other site 1249526002932 substrate (anthranilate) binding pocket [chemical binding]; other site 1249526002933 product (indole) binding pocket [chemical binding]; other site 1249526002934 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1249526002935 active site 1249526002936 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1249526002937 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1249526002938 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1249526002939 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1249526002940 active site 1249526002941 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1249526002942 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1249526002943 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1249526002944 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1249526002945 trimer interface [polypeptide binding]; other site 1249526002946 active site 1249526002947 UDP-GlcNAc binding site [chemical binding]; other site 1249526002948 lipid binding site [chemical binding]; lipid-binding site 1249526002949 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1249526002950 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1249526002951 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249526002952 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249526002953 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249526002954 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249526002955 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249526002956 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249526002957 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1249526002958 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1249526002959 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1249526002960 protein binding site [polypeptide binding]; other site 1249526002961 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1249526002962 protein binding site [polypeptide binding]; other site 1249526002963 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1249526002964 putative substrate binding region [chemical binding]; other site 1249526002965 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1249526002966 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1249526002967 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1249526002968 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1249526002969 catalytic residue [active] 1249526002970 putative FPP diphosphate binding site; other site 1249526002971 putative FPP binding hydrophobic cleft; other site 1249526002972 dimer interface [polypeptide binding]; other site 1249526002973 putative IPP diphosphate binding site; other site 1249526002974 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1249526002975 biotin synthase; Region: bioB; TIGR00433 1249526002976 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526002977 FeS/SAM binding site; other site 1249526002978 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1249526002979 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1249526002980 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1249526002981 active site 1249526002982 substrate-binding site [chemical binding]; other site 1249526002983 metal-binding site [ion binding] 1249526002984 ATP binding site [chemical binding]; other site 1249526002985 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1249526002986 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1249526002987 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1249526002988 substrate binding site; other site 1249526002989 dimer interface; other site 1249526002990 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1249526002991 homotrimer interaction site [polypeptide binding]; other site 1249526002992 zinc binding site [ion binding]; other site 1249526002993 CDP-binding sites; other site 1249526002994 Repair protein; Region: Repair_PSII; pfam04536 1249526002995 Repair protein; Region: Repair_PSII; cl01535 1249526002996 LemA family; Region: LemA; pfam04011 1249526002997 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1249526002998 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1249526002999 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1249526003000 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1249526003001 active site 1249526003002 P-loop; other site 1249526003003 phosphorylation site [posttranslational modification] 1249526003004 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1249526003005 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1249526003006 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1249526003007 putative substrate binding site [chemical binding]; other site 1249526003008 putative ATP binding site [chemical binding]; other site 1249526003009 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 1249526003010 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1249526003011 active site 1249526003012 phosphorylation site [posttranslational modification] 1249526003013 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1249526003014 dimerization domain swap beta strand [polypeptide binding]; other site 1249526003015 regulatory protein interface [polypeptide binding]; other site 1249526003016 active site 1249526003017 regulatory phosphorylation site [posttranslational modification]; other site 1249526003018 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1249526003019 dimerization domain swap beta strand [polypeptide binding]; other site 1249526003020 regulatory protein interface [polypeptide binding]; other site 1249526003021 active site 1249526003022 regulatory phosphorylation site [posttranslational modification]; other site 1249526003023 glycogen branching enzyme; Provisional; Region: PRK05402 1249526003024 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1249526003025 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1249526003026 active site 1249526003027 catalytic site [active] 1249526003028 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1249526003029 glycogen debranching enzyme; Provisional; Region: PRK03705 1249526003030 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1249526003031 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1249526003032 active site 1249526003033 catalytic site [active] 1249526003034 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1249526003035 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1249526003036 ligand binding site; other site 1249526003037 oligomer interface; other site 1249526003038 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1249526003039 dimer interface [polypeptide binding]; other site 1249526003040 N-terminal domain interface [polypeptide binding]; other site 1249526003041 sulfate 1 binding site; other site 1249526003042 glycogen synthase; Provisional; Region: glgA; PRK00654 1249526003043 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1249526003044 ADP-binding pocket [chemical binding]; other site 1249526003045 homodimer interface [polypeptide binding]; other site 1249526003046 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1249526003047 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1249526003048 active site pocket [active] 1249526003049 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1249526003050 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1249526003051 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1249526003052 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1249526003053 ligand binding site [chemical binding]; other site 1249526003054 homodimer interface [polypeptide binding]; other site 1249526003055 NAD(P) binding site [chemical binding]; other site 1249526003056 trimer interface B [polypeptide binding]; other site 1249526003057 trimer interface A [polypeptide binding]; other site 1249526003058 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1249526003059 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1249526003060 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1249526003061 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1249526003062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526003063 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1249526003064 putative dimerization interface [polypeptide binding]; other site 1249526003065 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1249526003066 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249526003067 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1249526003068 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1249526003069 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1249526003070 Phage capsid family; Region: Phage_capsid; pfam05065 1249526003071 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1249526003072 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1249526003073 integrase; Provisional; Region: PRK09692 1249526003074 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1249526003075 active site 1249526003076 Int/Topo IB signature motif; other site 1249526003077 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1249526003078 DNA topoisomerase III; Provisional; Region: PRK07726 1249526003079 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1249526003080 active site 1249526003081 putative interdomain interaction site [polypeptide binding]; other site 1249526003082 putative metal-binding site [ion binding]; other site 1249526003083 putative nucleotide binding site [chemical binding]; other site 1249526003084 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1249526003085 domain I; other site 1249526003086 DNA binding groove [nucleotide binding] 1249526003087 phosphate binding site [ion binding]; other site 1249526003088 domain II; other site 1249526003089 domain III; other site 1249526003090 nucleotide binding site [chemical binding]; other site 1249526003091 catalytic site [active] 1249526003092 domain IV; other site 1249526003093 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1249526003094 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1249526003095 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1249526003096 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1249526003097 Tetramer interface [polypeptide binding]; other site 1249526003098 active site 1249526003099 FMN-binding site [chemical binding]; other site 1249526003100 hypothetical protein; Provisional; Region: PRK11281 1249526003101 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1249526003102 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249526003103 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1249526003104 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1249526003105 acyl-activating enzyme (AAE) consensus motif; other site 1249526003106 putative AMP binding site [chemical binding]; other site 1249526003107 putative active site [active] 1249526003108 putative CoA binding site [chemical binding]; other site 1249526003109 SeqA protein; Region: SeqA; pfam03925 1249526003110 acyl-CoA esterase; Provisional; Region: PRK10673 1249526003111 PGAP1-like protein; Region: PGAP1; pfam07819 1249526003112 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526003113 S-adenosylmethionine binding site [chemical binding]; other site 1249526003114 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1249526003115 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249526003116 DNA binding site [nucleotide binding] 1249526003117 domain linker motif; other site 1249526003118 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1249526003119 dimerization interface [polypeptide binding]; other site 1249526003120 ligand binding site [chemical binding]; other site 1249526003121 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1249526003122 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1249526003123 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1249526003124 trimer interface [polypeptide binding]; other site 1249526003125 active site 1249526003126 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1249526003127 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1249526003128 Sugar specificity; other site 1249526003129 Pyrimidine base specificity; other site 1249526003130 ATP-binding site [chemical binding]; other site 1249526003131 Lysine efflux permease [General function prediction only]; Region: COG1279 1249526003132 rod shape-determining protein MreB; Provisional; Region: PRK13927 1249526003133 MreB and similar proteins; Region: MreB_like; cd10225 1249526003134 nucleotide binding site [chemical binding]; other site 1249526003135 Mg binding site [ion binding]; other site 1249526003136 putative protofilament interaction site [polypeptide binding]; other site 1249526003137 RodZ interaction site [polypeptide binding]; other site 1249526003138 rod shape-determining protein MreC; Region: mreC; TIGR00219 1249526003139 rod shape-determining protein MreC; Region: MreC; pfam04085 1249526003140 rod shape-determining protein MreD; Region: MreD; cl01087 1249526003141 recombination factor protein RarA; Reviewed; Region: PRK13342 1249526003142 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526003143 Walker A motif; other site 1249526003144 ATP binding site [chemical binding]; other site 1249526003145 Walker B motif; other site 1249526003146 arginine finger; other site 1249526003147 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1249526003148 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1249526003149 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526003150 ABC-ATPase subunit interface; other site 1249526003151 dimer interface [polypeptide binding]; other site 1249526003152 putative PBP binding regions; other site 1249526003153 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1249526003154 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1249526003155 putative dimer interface [polypeptide binding]; other site 1249526003156 putative active site [active] 1249526003157 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1249526003158 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1249526003159 substrate binding pocket [chemical binding]; other site 1249526003160 chain length determination region; other site 1249526003161 substrate-Mg2+ binding site; other site 1249526003162 catalytic residues [active] 1249526003163 aspartate-rich region 1; other site 1249526003164 active site lid residues [active] 1249526003165 aspartate-rich region 2; other site 1249526003166 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1249526003167 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1249526003168 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1249526003169 MOSC domain; Region: MOSC; pfam03473 1249526003170 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1249526003171 Sulfatase; Region: Sulfatase; pfam00884 1249526003172 fructokinase; Reviewed; Region: PRK09557 1249526003173 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249526003174 nucleotide binding site [chemical binding]; other site 1249526003175 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1249526003176 active site 1249526003177 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1249526003178 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1249526003179 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249526003180 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1249526003181 putative metal binding site; other site 1249526003182 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249526003183 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1249526003184 putative active site [active] 1249526003185 argininosuccinate synthase; Validated; Region: PRK05370 1249526003186 argininosuccinate synthase; Provisional; Region: PRK13820 1249526003187 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1249526003188 RNA/DNA hybrid binding site [nucleotide binding]; other site 1249526003189 active site 1249526003190 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1249526003191 Colicin V production protein; Region: Colicin_V; cl00567 1249526003192 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1249526003193 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1249526003194 active site 1249526003195 tetramer interface [polypeptide binding]; other site 1249526003196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526003197 active site 1249526003198 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1249526003199 MltA specific insert domain; Region: MltA; smart00925 1249526003200 3D domain; Region: 3D; pfam06725 1249526003201 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1249526003202 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1249526003203 generic binding surface II; other site 1249526003204 generic binding surface I; other site 1249526003205 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1249526003206 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1249526003207 P-loop; other site 1249526003208 Magnesium ion binding site [ion binding]; other site 1249526003209 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1249526003210 replicative DNA helicase; Region: DnaB; TIGR00665 1249526003211 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1249526003212 Walker A motif; other site 1249526003213 ATP binding site [chemical binding]; other site 1249526003214 Walker B motif; other site 1249526003215 DNA binding loops [nucleotide binding] 1249526003216 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1249526003217 ParB-like nuclease domain; Region: ParBc; pfam02195 1249526003218 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1249526003219 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1249526003220 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1249526003221 DNA topoisomerase III; Provisional; Region: PRK07726 1249526003222 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1249526003223 active site 1249526003224 putative interdomain interaction site [polypeptide binding]; other site 1249526003225 putative metal-binding site [ion binding]; other site 1249526003226 putative nucleotide binding site [chemical binding]; other site 1249526003227 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1249526003228 domain I; other site 1249526003229 DNA binding groove [nucleotide binding] 1249526003230 phosphate binding site [ion binding]; other site 1249526003231 domain II; other site 1249526003232 domain III; other site 1249526003233 nucleotide binding site [chemical binding]; other site 1249526003234 catalytic site [active] 1249526003235 domain IV; other site 1249526003236 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249526003237 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1249526003238 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1249526003239 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1249526003240 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1249526003241 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1249526003242 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249526003243 catalytic residue [active] 1249526003244 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1249526003245 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1249526003246 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1249526003247 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1249526003248 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1249526003249 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1249526003250 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 1249526003251 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1249526003252 Protein of unknown function (DUF2895); Region: DUF2895; pfam11444 1249526003253 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1249526003254 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1249526003255 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1249526003256 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1249526003257 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1249526003258 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1249526003259 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1249526003260 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1249526003261 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1249526003262 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1249526003263 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1249526003264 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1249526003265 Probable transposase; Region: OrfB_IS605; pfam01385 1249526003266 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1249526003267 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1249526003268 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1249526003269 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1249526003270 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1249526003271 Putative helicase; Region: TraI_2; pfam07514 1249526003272 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1249526003273 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1249526003274 active site 1249526003275 catalytic residues [active] 1249526003276 DNA binding site [nucleotide binding] 1249526003277 Int/Topo IB signature motif; other site 1249526003278 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1249526003279 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526003280 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526003281 Integrase core domain; Region: rve; pfam00665 1249526003282 Integrase core domain; Region: rve_3; pfam13683 1249526003283 D-lactate dehydrogenase; Provisional; Region: PRK11183 1249526003284 FAD binding domain; Region: FAD_binding_4; pfam01565 1249526003285 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1249526003286 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526003287 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526003288 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526003289 Integrase core domain; Region: rve; pfam00665 1249526003290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526003291 Integrase core domain; Region: rve_3; pfam13683 1249526003292 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1249526003293 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1249526003294 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1249526003295 DNA binding site [nucleotide binding] 1249526003296 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249526003297 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1249526003298 dimer interface [polypeptide binding]; other site 1249526003299 ssDNA binding site [nucleotide binding]; other site 1249526003300 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249526003301 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1249526003302 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249526003303 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1249526003304 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1249526003305 putative transporter; Provisional; Region: PRK11660 1249526003306 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1249526003307 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249526003308 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1249526003309 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526003310 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1249526003311 TM-ABC transporter signature motif; other site 1249526003312 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1249526003313 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526003314 Walker A/P-loop; other site 1249526003315 ATP binding site [chemical binding]; other site 1249526003316 Q-loop/lid; other site 1249526003317 ABC transporter signature motif; other site 1249526003318 Walker B; other site 1249526003319 D-loop; other site 1249526003320 H-loop/switch region; other site 1249526003321 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1249526003322 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1249526003323 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1249526003324 LrgA family; Region: LrgA; cl00608 1249526003325 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1249526003326 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1249526003327 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249526003328 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1249526003329 Walker A/P-loop; other site 1249526003330 ATP binding site [chemical binding]; other site 1249526003331 Q-loop/lid; other site 1249526003332 ABC transporter signature motif; other site 1249526003333 Walker B; other site 1249526003334 D-loop; other site 1249526003335 H-loop/switch region; other site 1249526003336 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1249526003337 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1249526003338 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1249526003339 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249526003340 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1249526003341 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1249526003342 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1249526003343 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526003344 active site 1249526003345 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1249526003346 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1249526003347 quinone interaction residues [chemical binding]; other site 1249526003348 active site 1249526003349 catalytic residues [active] 1249526003350 FMN binding site [chemical binding]; other site 1249526003351 substrate binding site [chemical binding]; other site 1249526003352 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1249526003353 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1249526003354 dimer interface [polypeptide binding]; other site 1249526003355 TPP-binding site [chemical binding]; other site 1249526003356 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1249526003357 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1249526003358 E3 interaction surface; other site 1249526003359 lipoyl attachment site [posttranslational modification]; other site 1249526003360 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1249526003361 E3 interaction surface; other site 1249526003362 lipoyl attachment site [posttranslational modification]; other site 1249526003363 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1249526003364 E3 interaction surface; other site 1249526003365 lipoyl attachment site [posttranslational modification]; other site 1249526003366 e3 binding domain; Region: E3_binding; pfam02817 1249526003367 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249526003368 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1249526003369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249526003370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249526003371 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249526003372 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1249526003373 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249526003374 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1249526003375 trimer interface [polypeptide binding]; other site 1249526003376 eyelet of channel; other site 1249526003377 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1249526003378 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1249526003379 Substrate binding site; other site 1249526003380 Mg++ binding site; other site 1249526003381 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1249526003382 active site 1249526003383 substrate binding site [chemical binding]; other site 1249526003384 CoA binding site [chemical binding]; other site 1249526003385 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526003386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526003387 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1249526003388 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526003389 S-adenosylmethionine binding site [chemical binding]; other site 1249526003390 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1249526003391 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526003392 Walker A motif; other site 1249526003393 ATP binding site [chemical binding]; other site 1249526003394 Walker B motif; other site 1249526003395 arginine finger; other site 1249526003396 Peptidase family M41; Region: Peptidase_M41; pfam01434 1249526003397 xanthine permease; Region: pbuX; TIGR03173 1249526003398 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1249526003399 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1249526003400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526003401 homodimer interface [polypeptide binding]; other site 1249526003402 catalytic residue [active] 1249526003403 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1249526003404 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1249526003405 hinge; other site 1249526003406 active site 1249526003407 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1249526003408 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1249526003409 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1249526003410 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1249526003411 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1249526003412 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1249526003413 homodimer interface [polypeptide binding]; other site 1249526003414 substrate-cofactor binding pocket; other site 1249526003415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526003416 catalytic residue [active] 1249526003417 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1249526003418 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1249526003419 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1249526003420 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1249526003421 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249526003422 metal binding triad; other site 1249526003423 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249526003424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1249526003425 Zn2+ binding site [ion binding]; other site 1249526003426 Mg2+ binding site [ion binding]; other site 1249526003427 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1249526003428 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1249526003429 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1249526003430 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249526003431 Walker A/P-loop; other site 1249526003432 ATP binding site [chemical binding]; other site 1249526003433 Q-loop/lid; other site 1249526003434 ABC transporter signature motif; other site 1249526003435 Walker B; other site 1249526003436 D-loop; other site 1249526003437 H-loop/switch region; other site 1249526003438 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1249526003439 ABC-ATPase subunit interface; other site 1249526003440 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1249526003441 dimer interface [polypeptide binding]; other site 1249526003442 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249526003443 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526003444 ABC-ATPase subunit interface; other site 1249526003445 dimer interface [polypeptide binding]; other site 1249526003446 putative PBP binding regions; other site 1249526003447 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1249526003448 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249526003449 putative ligand binding residues [chemical binding]; other site 1249526003450 replicative DNA helicase; Validated; Region: PRK06904 1249526003451 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1249526003452 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1249526003453 Walker A motif; other site 1249526003454 ATP binding site [chemical binding]; other site 1249526003455 Walker B motif; other site 1249526003456 DNA binding loops [nucleotide binding] 1249526003457 YcgL domain; Region: YcgL; pfam05166 1249526003458 transcriptional regulator NrdR; Region: TIGR00244 1249526003459 ATP cone domain; Region: ATP-cone; pfam03477 1249526003460 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1249526003461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249526003462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526003463 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1249526003464 dimerization interface [polypeptide binding]; other site 1249526003465 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1249526003466 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1249526003467 FMN binding site [chemical binding]; other site 1249526003468 substrate binding site [chemical binding]; other site 1249526003469 putative catalytic residue [active] 1249526003470 hypothetical protein; Provisional; Region: PRK11018 1249526003471 CPxP motif; other site 1249526003472 putative inner membrane protein; Provisional; Region: PRK11099 1249526003473 putative inner membrane protein; Provisional; Region: PRK11099 1249526003474 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1249526003475 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1249526003476 putative N- and C-terminal domain interface [polypeptide binding]; other site 1249526003477 putative active site [active] 1249526003478 MgATP binding site [chemical binding]; other site 1249526003479 catalytic site [active] 1249526003480 metal binding site [ion binding]; metal-binding site 1249526003481 putative carbohydrate binding site [chemical binding]; other site 1249526003482 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526003483 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526003484 TM-ABC transporter signature motif; other site 1249526003485 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1249526003486 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1249526003487 TM-ABC transporter signature motif; other site 1249526003488 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1249526003489 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1249526003490 Walker A/P-loop; other site 1249526003491 ATP binding site [chemical binding]; other site 1249526003492 Q-loop/lid; other site 1249526003493 ABC transporter signature motif; other site 1249526003494 Walker B; other site 1249526003495 D-loop; other site 1249526003496 H-loop/switch region; other site 1249526003497 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1249526003498 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249526003499 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1249526003500 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1249526003501 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1249526003502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526003503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526003504 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1249526003505 DNA-binding site [nucleotide binding]; DNA binding site 1249526003506 RNA-binding motif; other site 1249526003507 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1249526003508 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1249526003509 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1249526003510 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1249526003511 CPxP motif; other site 1249526003512 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249526003513 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1249526003514 Catalytic site [active] 1249526003515 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1249526003516 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526003517 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526003518 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1249526003519 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1249526003520 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1249526003521 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1249526003522 N-terminal plug; other site 1249526003523 ligand-binding site [chemical binding]; other site 1249526003524 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249526003525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526003526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1249526003527 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1249526003528 Flavoprotein; Region: Flavoprotein; pfam02441 1249526003529 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1249526003530 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1249526003531 hypothetical protein; Provisional; Region: PRK05255 1249526003532 peptidase PmbA; Provisional; Region: PRK11040 1249526003533 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526003534 active site 1249526003535 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 1249526003536 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1249526003537 catalytic site [active] 1249526003538 Asp-box motif; other site 1249526003539 Autotransporter beta-domain; Region: Autotransporter; cl17461 1249526003540 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1249526003541 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1249526003542 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1249526003543 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1249526003544 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1249526003545 active site 1249526003546 Int/Topo IB signature motif; other site 1249526003547 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1249526003548 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1249526003549 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1249526003550 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1249526003551 homotrimer interaction site [polypeptide binding]; other site 1249526003552 putative active site [active] 1249526003553 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1249526003554 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1249526003555 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1249526003556 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1249526003557 glutamate dehydrogenase; Provisional; Region: PRK09414 1249526003558 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1249526003559 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1249526003560 NAD(P) binding site [chemical binding]; other site 1249526003561 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249526003562 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249526003563 DNA binding site [nucleotide binding] 1249526003564 domain linker motif; other site 1249526003565 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1249526003566 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1249526003567 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1249526003568 active site 1249526003569 HIGH motif; other site 1249526003570 nucleotide binding site [chemical binding]; other site 1249526003571 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1249526003572 KMSKS motif; other site 1249526003573 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1249526003574 SnoaL-like domain; Region: SnoaL_4; pfam13577 1249526003575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249526003576 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1249526003577 NAD(P) binding site [chemical binding]; other site 1249526003578 active site 1249526003579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249526003580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526003581 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1249526003582 putative effector binding pocket; other site 1249526003583 putative dimerization interface [polypeptide binding]; other site 1249526003584 elongation factor P; Validated; Region: PRK00529 1249526003585 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1249526003586 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1249526003587 RNA binding site [nucleotide binding]; other site 1249526003588 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1249526003589 RNA binding site [nucleotide binding]; other site 1249526003590 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526003591 FeS/SAM binding site; other site 1249526003592 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1249526003593 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1249526003594 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1249526003595 putative dimer interface [polypeptide binding]; other site 1249526003596 putative anticodon binding site; other site 1249526003597 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1249526003598 homodimer interface [polypeptide binding]; other site 1249526003599 motif 1; other site 1249526003600 motif 2; other site 1249526003601 active site 1249526003602 motif 3; other site 1249526003603 exonuclease I; Provisional; Region: sbcB; PRK11779 1249526003604 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1249526003605 active site 1249526003606 catalytic site [active] 1249526003607 substrate binding site [chemical binding]; other site 1249526003608 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1249526003609 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1249526003610 putative active site [active] 1249526003611 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1249526003612 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1249526003613 active site 1249526003614 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1249526003615 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1249526003616 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1249526003617 Imelysin; Region: Peptidase_M75; pfam09375 1249526003618 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1249526003619 excinuclease ABC subunit B; Provisional; Region: PRK05298 1249526003620 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526003621 ATP binding site [chemical binding]; other site 1249526003622 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526003623 nucleotide binding region [chemical binding]; other site 1249526003624 ATP-binding site [chemical binding]; other site 1249526003625 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1249526003626 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1249526003627 ATP-grasp domain; Region: ATP-grasp; pfam02222 1249526003628 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1249526003629 active site 1249526003630 homotetramer interface [polypeptide binding]; other site 1249526003631 homodimer interface [polypeptide binding]; other site 1249526003632 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1249526003633 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249526003634 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1249526003635 C-terminal domain interface [polypeptide binding]; other site 1249526003636 putative GSH binding site (G-site) [chemical binding]; other site 1249526003637 dimer interface [polypeptide binding]; other site 1249526003638 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1249526003639 dimer interface [polypeptide binding]; other site 1249526003640 N-terminal domain interface [polypeptide binding]; other site 1249526003641 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1249526003642 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1249526003643 zinc binding site [ion binding]; other site 1249526003644 putative ligand binding site [chemical binding]; other site 1249526003645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249526003646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526003647 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1249526003648 putative effector binding pocket; other site 1249526003649 dimerization interface [polypeptide binding]; other site 1249526003650 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1249526003651 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1249526003652 active site 1249526003653 interdomain interaction site; other site 1249526003654 putative metal-binding site [ion binding]; other site 1249526003655 nucleotide binding site [chemical binding]; other site 1249526003656 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1249526003657 domain I; other site 1249526003658 DNA binding groove [nucleotide binding] 1249526003659 phosphate binding site [ion binding]; other site 1249526003660 domain II; other site 1249526003661 domain III; other site 1249526003662 nucleotide binding site [chemical binding]; other site 1249526003663 catalytic site [active] 1249526003664 domain IV; other site 1249526003665 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249526003666 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249526003667 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1249526003668 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1249526003669 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1249526003670 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1249526003671 putative substrate binding pocket [chemical binding]; other site 1249526003672 dimer interface [polypeptide binding]; other site 1249526003673 phosphate binding site [ion binding]; other site 1249526003674 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1249526003675 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1249526003676 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1249526003677 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526003678 S-adenosylmethionine binding site [chemical binding]; other site 1249526003679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1249526003680 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1249526003681 AAA domain; Region: AAA_26; pfam13500 1249526003682 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1249526003683 ribonuclease D; Provisional; Region: PRK10829 1249526003684 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1249526003685 catalytic site [active] 1249526003686 putative active site [active] 1249526003687 putative substrate binding site [chemical binding]; other site 1249526003688 HRDC domain; Region: HRDC; pfam00570 1249526003689 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1249526003690 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1249526003691 dimerization interface [polypeptide binding]; other site 1249526003692 putative DNA binding site [nucleotide binding]; other site 1249526003693 putative Zn2+ binding site [ion binding]; other site 1249526003694 AsnC family; Region: AsnC_trans_reg; pfam01037 1249526003695 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1249526003696 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1249526003697 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1249526003698 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1249526003699 Predicted metalloprotease [General function prediction only]; Region: COG2321 1249526003700 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1249526003701 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1249526003702 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249526003703 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1249526003704 Glycoprotease family; Region: Peptidase_M22; pfam00814 1249526003705 Predicted permeases [General function prediction only]; Region: COG0730 1249526003706 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1249526003707 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1249526003708 ligand binding site [chemical binding]; other site 1249526003709 flexible hinge region; other site 1249526003710 putative transporter; Provisional; Region: PRK10484 1249526003711 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1249526003712 Na binding site [ion binding]; other site 1249526003713 Sulfatase; Region: Sulfatase; cl17466 1249526003714 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1249526003715 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1249526003716 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1249526003717 thymidine kinase; Provisional; Region: PRK04296 1249526003718 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1249526003719 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1249526003720 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1249526003721 putative active site [active] 1249526003722 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1249526003723 proline aminopeptidase P II; Provisional; Region: PRK10879 1249526003724 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1249526003725 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1249526003726 active site 1249526003727 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1249526003728 N-acetylglutamate synthase; Validated; Region: PRK05279 1249526003729 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1249526003730 putative feedback inhibition sensing region; other site 1249526003731 putative nucleotide binding site [chemical binding]; other site 1249526003732 putative substrate binding site [chemical binding]; other site 1249526003733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249526003734 Coenzyme A binding pocket [chemical binding]; other site 1249526003735 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249526003736 EamA-like transporter family; Region: EamA; pfam00892 1249526003737 EamA-like transporter family; Region: EamA; pfam00892 1249526003738 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1249526003739 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1249526003740 putative valine binding site [chemical binding]; other site 1249526003741 dimer interface [polypeptide binding]; other site 1249526003742 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1249526003743 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1249526003744 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1249526003745 PYR/PP interface [polypeptide binding]; other site 1249526003746 dimer interface [polypeptide binding]; other site 1249526003747 TPP binding site [chemical binding]; other site 1249526003748 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1249526003749 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1249526003750 TPP-binding site [chemical binding]; other site 1249526003751 dimer interface [polypeptide binding]; other site 1249526003752 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1249526003753 active site clefts [active] 1249526003754 zinc binding site [ion binding]; other site 1249526003755 dimer interface [polypeptide binding]; other site 1249526003756 phosphate acetyltransferase; Reviewed; Region: PRK05632 1249526003757 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1249526003758 DRTGG domain; Region: DRTGG; pfam07085 1249526003759 phosphate acetyltransferase; Region: pta; TIGR00651 1249526003760 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1249526003761 propionate/acetate kinase; Provisional; Region: PRK12379 1249526003762 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1249526003763 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1249526003764 active site 1249526003765 metal binding site [ion binding]; metal-binding site 1249526003766 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1249526003767 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1249526003768 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1249526003769 active site 1249526003770 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526003771 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526003772 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526003773 Integrase core domain; Region: rve; pfam00665 1249526003774 Integrase core domain; Region: rve_3; pfam13683 1249526003775 Phage replication protein CRI; Region: Phage_CRI; pfam05144 1249526003776 Phage X family; Region: Phage_X; cl11585 1249526003777 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526003778 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526003779 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526003780 Integrase core domain; Region: rve; pfam00665 1249526003781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526003782 Integrase core domain; Region: rve_3; pfam13683 1249526003783 Zonular occludens toxin (Zot); Region: Zot; cl17485 1249526003784 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1249526003785 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1249526003786 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249526003787 chloroplast protein import component Toc86/159, G and M domains; Region: 3a0901s04IAP86; TIGR00993 1249526003788 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1249526003789 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1249526003790 homodimer interface [polypeptide binding]; other site 1249526003791 substrate-cofactor binding pocket; other site 1249526003792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526003793 catalytic residue [active] 1249526003794 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1249526003795 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1249526003796 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1249526003797 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1249526003798 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1249526003799 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1249526003800 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1249526003801 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1249526003802 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1249526003803 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1249526003804 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1249526003805 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1249526003806 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1249526003807 molybdopterin cofactor binding site [chemical binding]; other site 1249526003808 substrate binding site [chemical binding]; other site 1249526003809 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1249526003810 molybdopterin cofactor binding site; other site 1249526003811 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1249526003812 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1249526003813 substrate binding site [chemical binding]; other site 1249526003814 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1249526003815 substrate binding site [chemical binding]; other site 1249526003816 ligand binding site [chemical binding]; other site 1249526003817 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1249526003818 isocitrate dehydrogenase; Validated; Region: PRK07362 1249526003819 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1249526003820 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1249526003821 dimer interface [polypeptide binding]; other site 1249526003822 active site 1249526003823 citrylCoA binding site [chemical binding]; other site 1249526003824 NADH binding [chemical binding]; other site 1249526003825 cationic pore residues; other site 1249526003826 oxalacetate/citrate binding site [chemical binding]; other site 1249526003827 coenzyme A binding site [chemical binding]; other site 1249526003828 catalytic triad [active] 1249526003829 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1249526003830 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1249526003831 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1249526003832 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1249526003833 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1249526003834 DNA methylase; Region: N6_N4_Mtase; pfam01555 1249526003835 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1249526003836 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1249526003837 molybdopterin cofactor binding site [chemical binding]; other site 1249526003838 substrate binding site [chemical binding]; other site 1249526003839 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1249526003840 molybdopterin cofactor binding site; other site 1249526003841 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1249526003842 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1249526003843 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1249526003844 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1249526003845 DNA binding residues [nucleotide binding] 1249526003846 dimerization interface [polypeptide binding]; other site 1249526003847 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1249526003848 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1249526003849 ligand binding site [chemical binding]; other site 1249526003850 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1249526003851 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526003852 FeS/SAM binding site; other site 1249526003853 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1249526003854 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1249526003855 trimer interface [polypeptide binding]; other site 1249526003856 dimer interface [polypeptide binding]; other site 1249526003857 putative active site [active] 1249526003858 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1249526003859 MoaE interaction surface [polypeptide binding]; other site 1249526003860 MoeB interaction surface [polypeptide binding]; other site 1249526003861 thiocarboxylated glycine; other site 1249526003862 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1249526003863 MoaE homodimer interface [polypeptide binding]; other site 1249526003864 MoaD interaction [polypeptide binding]; other site 1249526003865 active site residues [active] 1249526003866 metal-binding heat shock protein; Provisional; Region: PRK00016 1249526003867 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1249526003868 Helicase; Region: Helicase_RecD; pfam05127 1249526003869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249526003870 Coenzyme A binding pocket [chemical binding]; other site 1249526003871 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1249526003872 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1249526003873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526003874 homodimer interface [polypeptide binding]; other site 1249526003875 catalytic residue [active] 1249526003876 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1249526003877 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249526003878 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1249526003879 G4 box; other site 1249526003880 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1249526003881 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1249526003882 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1249526003883 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1249526003884 metal binding site [ion binding]; metal-binding site 1249526003885 homodimer interface [polypeptide binding]; other site 1249526003886 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1249526003887 homodimer interface [polypeptide binding]; other site 1249526003888 active site 1249526003889 putative chemical substrate binding site [chemical binding]; other site 1249526003890 metal binding site [ion binding]; metal-binding site 1249526003891 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1249526003892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1249526003893 active site 1249526003894 phosphorylation site [posttranslational modification] 1249526003895 intermolecular recognition site; other site 1249526003896 dimerization interface [polypeptide binding]; other site 1249526003897 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1249526003898 DNA binding site [nucleotide binding] 1249526003899 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1249526003900 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1249526003901 dimerization interface [polypeptide binding]; other site 1249526003902 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1249526003903 dimer interface [polypeptide binding]; other site 1249526003904 phosphorylation site [posttranslational modification] 1249526003905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526003906 ATP binding site [chemical binding]; other site 1249526003907 Mg2+ binding site [ion binding]; other site 1249526003908 G-X-G motif; other site 1249526003909 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1249526003910 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249526003911 Walker A/P-loop; other site 1249526003912 ATP binding site [chemical binding]; other site 1249526003913 Q-loop/lid; other site 1249526003914 ABC transporter signature motif; other site 1249526003915 Walker B; other site 1249526003916 D-loop; other site 1249526003917 H-loop/switch region; other site 1249526003918 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249526003919 FtsX-like permease family; Region: FtsX; pfam02687 1249526003920 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1249526003921 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1249526003922 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1249526003923 dimer interface [polypeptide binding]; other site 1249526003924 putative radical transfer pathway; other site 1249526003925 diiron center [ion binding]; other site 1249526003926 tyrosyl radical; other site 1249526003927 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1249526003928 ATP cone domain; Region: ATP-cone; pfam03477 1249526003929 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1249526003930 active site 1249526003931 dimer interface [polypeptide binding]; other site 1249526003932 catalytic residues [active] 1249526003933 effector binding site; other site 1249526003934 R2 peptide binding site; other site 1249526003935 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1249526003936 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1249526003937 TPR repeat; Region: TPR_11; pfam13414 1249526003938 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1249526003939 binding surface 1249526003940 TPR motif; other site 1249526003941 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249526003942 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1249526003943 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1249526003944 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1249526003945 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249526003946 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1249526003947 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1249526003948 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1249526003949 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1249526003950 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1249526003951 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1249526003952 protein-splicing catalytic site; other site 1249526003953 thioester formation/cholesterol transfer; other site 1249526003954 Pretoxin HINT domain; Region: PT-HINT; pfam07591 1249526003955 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1249526003956 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1249526003957 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1249526003958 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1249526003959 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1249526003960 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1249526003961 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1249526003962 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1249526003963 Competence protein; Region: Competence; pfam03772 1249526003964 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1249526003965 serine/threonine transporter SstT; Provisional; Region: PRK13628 1249526003966 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249526003967 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1249526003968 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1249526003969 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1249526003970 active site 1249526003971 metal binding site [ion binding]; metal-binding site 1249526003972 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1249526003973 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1249526003974 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1249526003975 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1249526003976 putative active site [active] 1249526003977 Domain of unknown function (DUF386); Region: DUF386; cl01047 1249526003978 exopolyphosphatase; Provisional; Region: PRK10854 1249526003979 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1249526003980 hypothetical protein; Provisional; Region: PRK05423 1249526003981 aspartate kinase III; Validated; Region: PRK09084 1249526003982 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1249526003983 nucleotide binding site [chemical binding]; other site 1249526003984 substrate binding site [chemical binding]; other site 1249526003985 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1249526003986 lysine allosteric regulatory site; other site 1249526003987 dimer interface [polypeptide binding]; other site 1249526003988 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1249526003989 dimer interface [polypeptide binding]; other site 1249526003990 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1249526003991 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1249526003992 CAP-like domain; other site 1249526003993 active site 1249526003994 primary dimer interface [polypeptide binding]; other site 1249526003995 PBP superfamily domain; Region: PBP_like_2; cl17296 1249526003996 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526003997 dimer interface [polypeptide binding]; other site 1249526003998 conserved gate region; other site 1249526003999 putative PBP binding loops; other site 1249526004000 ABC-ATPase subunit interface; other site 1249526004001 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1249526004002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526004003 dimer interface [polypeptide binding]; other site 1249526004004 conserved gate region; other site 1249526004005 putative PBP binding loops; other site 1249526004006 ABC-ATPase subunit interface; other site 1249526004007 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1249526004008 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1249526004009 Walker A/P-loop; other site 1249526004010 ATP binding site [chemical binding]; other site 1249526004011 Q-loop/lid; other site 1249526004012 ABC transporter signature motif; other site 1249526004013 Walker B; other site 1249526004014 D-loop; other site 1249526004015 H-loop/switch region; other site 1249526004016 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1249526004017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1249526004018 active site 1249526004019 phosphorylation site [posttranslational modification] 1249526004020 intermolecular recognition site; other site 1249526004021 dimerization interface [polypeptide binding]; other site 1249526004022 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1249526004023 DNA binding site [nucleotide binding] 1249526004024 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1249526004025 PAS domain; Region: PAS; smart00091 1249526004026 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1249526004027 dimer interface [polypeptide binding]; other site 1249526004028 phosphorylation site [posttranslational modification] 1249526004029 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526004030 ATP binding site [chemical binding]; other site 1249526004031 Mg2+ binding site [ion binding]; other site 1249526004032 G-X-G motif; other site 1249526004033 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1249526004034 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1249526004035 RNase E interface [polypeptide binding]; other site 1249526004036 trimer interface [polypeptide binding]; other site 1249526004037 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1249526004038 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1249526004039 RNase E interface [polypeptide binding]; other site 1249526004040 trimer interface [polypeptide binding]; other site 1249526004041 active site 1249526004042 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1249526004043 putative nucleic acid binding region [nucleotide binding]; other site 1249526004044 G-X-X-G motif; other site 1249526004045 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1249526004046 RNA binding site [nucleotide binding]; other site 1249526004047 domain interface; other site 1249526004048 lipoprotein NlpI; Provisional; Region: PRK11189 1249526004049 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1249526004050 binding surface 1249526004051 TPR motif; other site 1249526004052 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1249526004053 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1249526004054 ATP binding site [chemical binding]; other site 1249526004055 Mg++ binding site [ion binding]; other site 1249526004056 motif III; other site 1249526004057 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526004058 nucleotide binding region [chemical binding]; other site 1249526004059 ATP-binding site [chemical binding]; other site 1249526004060 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1249526004061 putative RNA binding site [nucleotide binding]; other site 1249526004062 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1249526004063 nucleoside/Zn binding site; other site 1249526004064 dimer interface [polypeptide binding]; other site 1249526004065 catalytic motif [active] 1249526004066 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1249526004067 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1249526004068 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249526004069 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1249526004070 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1249526004071 RNA binding site [nucleotide binding]; other site 1249526004072 active site 1249526004073 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1249526004074 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1249526004075 translation initiation factor IF-2; Region: IF-2; TIGR00487 1249526004076 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1249526004077 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1249526004078 G1 box; other site 1249526004079 putative GEF interaction site [polypeptide binding]; other site 1249526004080 GTP/Mg2+ binding site [chemical binding]; other site 1249526004081 Switch I region; other site 1249526004082 G2 box; other site 1249526004083 G3 box; other site 1249526004084 Switch II region; other site 1249526004085 G4 box; other site 1249526004086 G5 box; other site 1249526004087 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1249526004088 Translation-initiation factor 2; Region: IF-2; pfam11987 1249526004089 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1249526004090 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1249526004091 NusA N-terminal domain; Region: NusA_N; pfam08529 1249526004092 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1249526004093 RNA binding site [nucleotide binding]; other site 1249526004094 homodimer interface [polypeptide binding]; other site 1249526004095 NusA-like KH domain; Region: KH_5; pfam13184 1249526004096 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1249526004097 G-X-X-G motif; other site 1249526004098 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1249526004099 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1249526004100 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1249526004101 Sm and related proteins; Region: Sm_like; cl00259 1249526004102 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1249526004103 putative oligomer interface [polypeptide binding]; other site 1249526004104 putative RNA binding site [nucleotide binding]; other site 1249526004105 lytic murein transglycosylase; Provisional; Region: PRK11619 1249526004106 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1249526004107 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249526004108 catalytic residue [active] 1249526004109 translation initiation factor Sui1; Validated; Region: PRK06824 1249526004110 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1249526004111 putative rRNA binding site [nucleotide binding]; other site 1249526004112 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1249526004113 active site 1249526004114 dimer interface [polypeptide binding]; other site 1249526004115 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1249526004116 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1249526004117 binding surface 1249526004118 TPR motif; other site 1249526004119 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1249526004120 TPR motif; other site 1249526004121 binding surface 1249526004122 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1249526004123 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1249526004124 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1249526004125 IHF dimer interface [polypeptide binding]; other site 1249526004126 IHF - DNA interface [nucleotide binding]; other site 1249526004127 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1249526004128 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1249526004129 RNA binding site [nucleotide binding]; other site 1249526004130 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1249526004131 RNA binding site [nucleotide binding]; other site 1249526004132 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1249526004133 RNA binding site [nucleotide binding]; other site 1249526004134 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1249526004135 RNA binding site [nucleotide binding]; other site 1249526004136 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1249526004137 RNA binding site [nucleotide binding]; other site 1249526004138 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1249526004139 RNA binding site [nucleotide binding]; other site 1249526004140 cytidylate kinase; Provisional; Region: cmk; PRK00023 1249526004141 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1249526004142 CMP-binding site; other site 1249526004143 The sites determining sugar specificity; other site 1249526004144 serine endoprotease; Provisional; Region: PRK10898 1249526004145 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1249526004146 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1249526004147 protein binding site [polypeptide binding]; other site 1249526004148 NlpC/P60 family; Region: NLPC_P60; pfam00877 1249526004149 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1249526004150 IHF dimer interface [polypeptide binding]; other site 1249526004151 IHF - DNA interface [nucleotide binding]; other site 1249526004152 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1249526004153 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1249526004154 putative tRNA-binding site [nucleotide binding]; other site 1249526004155 B3/4 domain; Region: B3_4; pfam03483 1249526004156 tRNA synthetase B5 domain; Region: B5; smart00874 1249526004157 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1249526004158 dimer interface [polypeptide binding]; other site 1249526004159 motif 1; other site 1249526004160 motif 3; other site 1249526004161 motif 2; other site 1249526004162 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1249526004163 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1249526004164 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1249526004165 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1249526004166 dimer interface [polypeptide binding]; other site 1249526004167 motif 1; other site 1249526004168 active site 1249526004169 motif 2; other site 1249526004170 motif 3; other site 1249526004171 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1249526004172 dimer interface [polypeptide binding]; other site 1249526004173 FMN binding site [chemical binding]; other site 1249526004174 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1249526004175 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1249526004176 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 1249526004177 Cation efflux family; Region: Cation_efflux; cl00316 1249526004178 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1249526004179 hypothetical protein; Validated; Region: PRK02101 1249526004180 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1249526004181 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1249526004182 active site 1249526004183 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1249526004184 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1249526004185 putative active site [active] 1249526004186 putative nucleic acid binding site [nucleotide binding]; other site 1249526004187 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1249526004188 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1249526004189 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1249526004190 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1249526004191 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 1249526004192 23S rRNA interface [nucleotide binding]; other site 1249526004193 L3 interface [polypeptide binding]; other site 1249526004194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1249526004195 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1249526004196 GMP synthase; Reviewed; Region: guaA; PRK00074 1249526004197 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1249526004198 AMP/PPi binding site [chemical binding]; other site 1249526004199 candidate oxyanion hole; other site 1249526004200 catalytic triad [active] 1249526004201 potential glutamine specificity residues [chemical binding]; other site 1249526004202 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1249526004203 ATP Binding subdomain [chemical binding]; other site 1249526004204 Ligand Binding sites [chemical binding]; other site 1249526004205 Dimerization subdomain; other site 1249526004206 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1249526004207 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526004208 motif II; other site 1249526004209 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1249526004210 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1249526004211 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1249526004212 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1249526004213 active site 1249526004214 multidrug efflux protein; Reviewed; Region: PRK09579 1249526004215 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1249526004216 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1249526004217 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249526004218 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1249526004219 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249526004220 hypothetical protein; Provisional; Region: PRK13689 1249526004221 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1249526004222 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1249526004223 Sulfatase; Region: Sulfatase; cl17466 1249526004224 putative arabinose transporter; Provisional; Region: PRK03545 1249526004225 putative arabinose transporter; Provisional; Region: PRK03545 1249526004226 cell division protein MukB; Provisional; Region: mukB; PRK04863 1249526004227 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1249526004228 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1249526004229 condesin subunit E; Provisional; Region: PRK05256 1249526004230 condesin subunit F; Provisional; Region: PRK05260 1249526004231 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1249526004232 tetramer interface; other site 1249526004233 active site 1249526004234 carbon storage regulator; Provisional; Region: PRK01712 1249526004235 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1249526004236 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1249526004237 active site 1249526004238 motif 2; other site 1249526004239 motif 3; other site 1249526004240 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1249526004241 DHHA1 domain; Region: DHHA1; pfam02272 1249526004242 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1249526004243 Ligand Binding Site [chemical binding]; other site 1249526004244 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1249526004245 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1249526004246 ligand binding site [chemical binding]; other site 1249526004247 flexible hinge region; other site 1249526004248 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1249526004249 putative switch regulator; other site 1249526004250 non-specific DNA interactions [nucleotide binding]; other site 1249526004251 DNA binding site [nucleotide binding] 1249526004252 sequence specific DNA binding site [nucleotide binding]; other site 1249526004253 putative cAMP binding site [chemical binding]; other site 1249526004254 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1249526004255 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1249526004256 NAD binding site [chemical binding]; other site 1249526004257 homotetramer interface [polypeptide binding]; other site 1249526004258 homodimer interface [polypeptide binding]; other site 1249526004259 substrate binding site [chemical binding]; other site 1249526004260 active site 1249526004261 Bor protein; Region: Lambda_Bor; pfam06291 1249526004262 Bor protein; Region: Lambda_Bor; pfam06291 1249526004263 exoribonuclease II; Provisional; Region: PRK05054 1249526004264 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1249526004265 RNB domain; Region: RNB; pfam00773 1249526004266 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1249526004267 RNA binding site [nucleotide binding]; other site 1249526004268 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1249526004269 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1249526004270 active site 1249526004271 metal binding site [ion binding]; metal-binding site 1249526004272 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1249526004273 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1249526004274 active site 1249526004275 DNA binding site [nucleotide binding] 1249526004276 Int/Topo IB signature motif; other site 1249526004277 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249526004278 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1249526004279 dimer interface [polypeptide binding]; other site 1249526004280 ssDNA binding site [nucleotide binding]; other site 1249526004281 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249526004282 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1249526004283 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1249526004284 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1249526004285 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1249526004286 DksA-like zinc finger domain containing protein; Region: PHA00080 1249526004287 phage lambda Rz1-like protein; Region: PHA02047 1249526004288 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1249526004289 catalytic residues [active] 1249526004290 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1249526004291 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1249526004292 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1249526004293 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1249526004294 capsid protein; Provisional; Region: N; PHA02538 1249526004295 capsid-scaffolding protein; Provisional; Region: O; PHA02529 1249526004296 terminase ATPase subunit; Provisional; Region: P; PHA02535 1249526004297 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1249526004298 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1249526004299 portal vertex protein; Provisional; Region: Q; PHA02536 1249526004300 Phage portal protein; Region: Phage_portal; pfam04860 1249526004301 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1249526004302 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1249526004303 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1249526004304 SelR domain; Region: SelR; pfam01641 1249526004305 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1249526004306 tartrate dehydrogenase; Region: TTC; TIGR02089 1249526004307 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1249526004308 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1249526004309 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1249526004310 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526004311 Walker A/P-loop; other site 1249526004312 ATP binding site [chemical binding]; other site 1249526004313 Q-loop/lid; other site 1249526004314 ABC transporter signature motif; other site 1249526004315 Walker B; other site 1249526004316 D-loop; other site 1249526004317 H-loop/switch region; other site 1249526004318 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1249526004319 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1249526004320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526004321 dimer interface [polypeptide binding]; other site 1249526004322 conserved gate region; other site 1249526004323 putative PBP binding loops; other site 1249526004324 ABC-ATPase subunit interface; other site 1249526004325 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 1249526004326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526004327 dimer interface [polypeptide binding]; other site 1249526004328 conserved gate region; other site 1249526004329 putative PBP binding loops; other site 1249526004330 ABC-ATPase subunit interface; other site 1249526004331 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526004332 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249526004333 peptide binding site [polypeptide binding]; other site 1249526004334 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1249526004335 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526004336 Walker A motif; other site 1249526004337 ATP binding site [chemical binding]; other site 1249526004338 Walker B motif; other site 1249526004339 arginine finger; other site 1249526004340 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1249526004341 dimer interface [polypeptide binding]; other site 1249526004342 active site 1249526004343 hypothetical protein; Provisional; Region: PRK05170 1249526004344 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1249526004345 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1249526004346 active site 1249526004347 dimerization interface [polypeptide binding]; other site 1249526004348 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1249526004349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249526004350 Coenzyme A binding pocket [chemical binding]; other site 1249526004351 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1249526004352 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1249526004353 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1249526004354 dimerization interface [polypeptide binding]; other site 1249526004355 Histidine kinase; Region: HisKA_3; pfam07730 1249526004356 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526004357 ATP binding site [chemical binding]; other site 1249526004358 Mg2+ binding site [ion binding]; other site 1249526004359 G-X-G motif; other site 1249526004360 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1249526004361 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526004362 active site 1249526004363 motif I; other site 1249526004364 motif II; other site 1249526004365 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249526004366 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249526004367 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1249526004368 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1249526004369 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1249526004370 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249526004371 ligand binding site [chemical binding]; other site 1249526004372 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1249526004373 DHH family; Region: DHH; pfam01368 1249526004374 DHHA1 domain; Region: DHHA1; pfam02272 1249526004375 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1249526004376 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1249526004377 dimerization domain [polypeptide binding]; other site 1249526004378 dimer interface [polypeptide binding]; other site 1249526004379 catalytic residues [active] 1249526004380 putative peptidase; Provisional; Region: PRK11649 1249526004381 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249526004382 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1249526004383 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1249526004384 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1249526004385 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1249526004386 TPP-binding site [chemical binding]; other site 1249526004387 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1249526004388 dimer interface [polypeptide binding]; other site 1249526004389 PYR/PP interface [polypeptide binding]; other site 1249526004390 TPP binding site [chemical binding]; other site 1249526004391 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1249526004392 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1249526004393 E3 interaction surface; other site 1249526004394 lipoyl attachment site [posttranslational modification]; other site 1249526004395 e3 binding domain; Region: E3_binding; pfam02817 1249526004396 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1249526004397 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1249526004398 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1249526004399 CoA-ligase; Region: Ligase_CoA; pfam00549 1249526004400 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1249526004401 CoA binding domain; Region: CoA_binding; pfam02629 1249526004402 CoA-ligase; Region: Ligase_CoA; pfam00549 1249526004403 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1249526004404 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1249526004405 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1249526004406 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1249526004407 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1249526004408 5S rRNA interface [nucleotide binding]; other site 1249526004409 CTC domain interface [polypeptide binding]; other site 1249526004410 L16 interface [polypeptide binding]; other site 1249526004411 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1249526004412 FMN binding site [chemical binding]; other site 1249526004413 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1249526004414 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1249526004415 putative NAD(P) binding site [chemical binding]; other site 1249526004416 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1249526004417 Transglycosylase; Region: Transgly; cl17702 1249526004418 Trp operon repressor; Provisional; Region: PRK01381 1249526004419 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1249526004420 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1249526004421 DNA polymerase I; Provisional; Region: PRK05755 1249526004422 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1249526004423 active site 1249526004424 metal binding site 1 [ion binding]; metal-binding site 1249526004425 putative 5' ssDNA interaction site; other site 1249526004426 metal binding site 3; metal-binding site 1249526004427 metal binding site 2 [ion binding]; metal-binding site 1249526004428 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1249526004429 putative DNA binding site [nucleotide binding]; other site 1249526004430 putative metal binding site [ion binding]; other site 1249526004431 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1249526004432 active site 1249526004433 catalytic site [active] 1249526004434 substrate binding site [chemical binding]; other site 1249526004435 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1249526004436 active site 1249526004437 DNA binding site [nucleotide binding] 1249526004438 catalytic site [active] 1249526004439 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1249526004440 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526004441 non-specific DNA binding site [nucleotide binding]; other site 1249526004442 salt bridge; other site 1249526004443 sequence-specific DNA binding site [nucleotide binding]; other site 1249526004444 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1249526004445 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249526004446 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1249526004447 Catalytic site [active] 1249526004448 Haemolysin XhlA; Region: XhlA; pfam10779 1249526004449 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1249526004450 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1249526004451 active site 1249526004452 DNA binding site [nucleotide binding] 1249526004453 Int/Topo IB signature motif; other site 1249526004454 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526004455 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526004456 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526004457 Integrase core domain; Region: rve_3; pfam13683 1249526004458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1249526004459 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1249526004460 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1249526004461 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1249526004462 substrate binding site [chemical binding]; other site 1249526004463 active site 1249526004464 catalytic residues [active] 1249526004465 heterodimer interface [polypeptide binding]; other site 1249526004466 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1249526004467 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1249526004468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526004469 catalytic residue [active] 1249526004470 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1249526004471 malonic semialdehyde reductase; Provisional; Region: PRK10538 1249526004472 putative NAD(P) binding site [chemical binding]; other site 1249526004473 homotetramer interface [polypeptide binding]; other site 1249526004474 homodimer interface [polypeptide binding]; other site 1249526004475 active site 1249526004476 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1249526004477 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1249526004478 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1249526004479 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1249526004480 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1249526004481 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1249526004482 putative active site [active] 1249526004483 putative substrate binding site [chemical binding]; other site 1249526004484 putative cosubstrate binding site; other site 1249526004485 catalytic site [active] 1249526004486 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1249526004487 putative active site [active] 1249526004488 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1249526004489 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1249526004490 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1249526004491 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1249526004492 dimer interface [polypeptide binding]; other site 1249526004493 putative anticodon binding site; other site 1249526004494 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1249526004495 motif 1; other site 1249526004496 active site 1249526004497 motif 2; other site 1249526004498 motif 3; other site 1249526004499 ribonuclease G; Provisional; Region: PRK11712 1249526004500 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1249526004501 homodimer interface [polypeptide binding]; other site 1249526004502 oligonucleotide binding site [chemical binding]; other site 1249526004503 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1249526004504 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1249526004505 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1249526004506 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1249526004507 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1249526004508 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1249526004509 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1249526004510 Domain of unknown function DUF87; Region: DUF87; pfam01935 1249526004511 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1249526004512 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1249526004513 Domain of unknown function DUF87; Region: DUF87; pfam01935 1249526004514 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1249526004515 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1249526004516 Probable transposase; Region: OrfB_IS605; pfam01385 1249526004517 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1249526004518 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1249526004519 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1249526004520 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1249526004521 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1249526004522 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1249526004523 uncharacterized domain; Region: TIGR00702 1249526004524 YcaO-like family; Region: YcaO; pfam02624 1249526004525 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1249526004526 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526004527 S-adenosylmethionine binding site [chemical binding]; other site 1249526004528 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1249526004529 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526004530 Mg2+ binding site [ion binding]; other site 1249526004531 G-X-G motif; other site 1249526004532 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1249526004533 anchoring element; other site 1249526004534 dimer interface [polypeptide binding]; other site 1249526004535 ATP binding site [chemical binding]; other site 1249526004536 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1249526004537 active site 1249526004538 putative metal-binding site [ion binding]; other site 1249526004539 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1249526004540 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1249526004541 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526004542 ATP binding site [chemical binding]; other site 1249526004543 putative Mg++ binding site [ion binding]; other site 1249526004544 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1249526004545 DNA methylase; Region: N6_N4_Mtase; pfam01555 1249526004546 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1249526004547 UbiA prenyltransferase family; Region: UbiA; pfam01040 1249526004548 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1249526004549 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1249526004550 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249526004551 adenylosuccinate lyase; Provisional; Region: PRK09285 1249526004552 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1249526004553 tetramer interface [polypeptide binding]; other site 1249526004554 active site 1249526004555 putative lysogenization regulator; Reviewed; Region: PRK00218 1249526004556 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1249526004557 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249526004558 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526004559 Walker A/P-loop; other site 1249526004560 ATP binding site [chemical binding]; other site 1249526004561 Q-loop/lid; other site 1249526004562 ABC transporter signature motif; other site 1249526004563 Walker B; other site 1249526004564 D-loop; other site 1249526004565 H-loop/switch region; other site 1249526004566 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1249526004567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249526004568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526004569 Walker A/P-loop; other site 1249526004570 ATP binding site [chemical binding]; other site 1249526004571 Q-loop/lid; other site 1249526004572 ABC transporter signature motif; other site 1249526004573 Walker B; other site 1249526004574 D-loop; other site 1249526004575 H-loop/switch region; other site 1249526004576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1249526004577 Family of unknown function (DUF490); Region: DUF490; pfam04357 1249526004578 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1249526004579 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1249526004580 Surface antigen; Region: Bac_surface_Ag; pfam01103 1249526004581 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1249526004582 NodB motif; other site 1249526004583 putative active site [active] 1249526004584 putative catalytic site [active] 1249526004585 Zn binding site [ion binding]; other site 1249526004586 AmiB activator; Provisional; Region: PRK11637 1249526004587 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cl00240 1249526004588 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249526004589 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1249526004590 catalytic core [active] 1249526004591 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1249526004592 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1249526004593 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1249526004594 hinge region; other site 1249526004595 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 1249526004596 putative nucleotide binding site [chemical binding]; other site 1249526004597 uridine monophosphate binding site [chemical binding]; other site 1249526004598 homohexameric interface [polypeptide binding]; other site 1249526004599 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1249526004600 Sulfatase; Region: Sulfatase; cl17466 1249526004601 elongation factor Ts; Provisional; Region: tsf; PRK09377 1249526004602 UBA/TS-N domain; Region: UBA; pfam00627 1249526004603 Elongation factor TS; Region: EF_TS; pfam00889 1249526004604 Elongation factor TS; Region: EF_TS; pfam00889 1249526004605 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1249526004606 rRNA interaction site [nucleotide binding]; other site 1249526004607 S8 interaction site; other site 1249526004608 putative laminin-1 binding site; other site 1249526004609 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1249526004610 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1249526004611 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1249526004612 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526004613 dimer interface [polypeptide binding]; other site 1249526004614 conserved gate region; other site 1249526004615 putative PBP binding loops; other site 1249526004616 ABC-ATPase subunit interface; other site 1249526004617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526004618 dimer interface [polypeptide binding]; other site 1249526004619 conserved gate region; other site 1249526004620 putative PBP binding loops; other site 1249526004621 ABC-ATPase subunit interface; other site 1249526004622 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1249526004623 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1249526004624 Walker A/P-loop; other site 1249526004625 ATP binding site [chemical binding]; other site 1249526004626 Q-loop/lid; other site 1249526004627 ABC transporter signature motif; other site 1249526004628 Walker B; other site 1249526004629 D-loop; other site 1249526004630 H-loop/switch region; other site 1249526004631 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1249526004632 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1249526004633 catalytic residues [active] 1249526004634 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1249526004635 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1249526004636 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1249526004637 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1249526004638 ATP binding site [chemical binding]; other site 1249526004639 Mg++ binding site [ion binding]; other site 1249526004640 motif III; other site 1249526004641 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526004642 nucleotide binding region [chemical binding]; other site 1249526004643 ATP-binding site [chemical binding]; other site 1249526004644 Recombination protein O N terminal; Region: RecO_N; pfam11967 1249526004645 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1249526004646 Recombination protein O C terminal; Region: RecO_C; pfam02565 1249526004647 GTPase Era; Reviewed; Region: era; PRK00089 1249526004648 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1249526004649 G1 box; other site 1249526004650 GTP/Mg2+ binding site [chemical binding]; other site 1249526004651 Switch I region; other site 1249526004652 G2 box; other site 1249526004653 Switch II region; other site 1249526004654 G3 box; other site 1249526004655 G4 box; other site 1249526004656 G5 box; other site 1249526004657 KH domain; Region: KH_2; pfam07650 1249526004658 ribonuclease III; Reviewed; Region: rnc; PRK00102 1249526004659 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1249526004660 dimerization interface [polypeptide binding]; other site 1249526004661 active site 1249526004662 metal binding site [ion binding]; metal-binding site 1249526004663 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1249526004664 dsRNA binding site [nucleotide binding]; other site 1249526004665 signal peptidase I; Provisional; Region: PRK10861 1249526004666 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1249526004667 Catalytic site [active] 1249526004668 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1249526004669 GTP-binding protein LepA; Provisional; Region: PRK05433 1249526004670 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1249526004671 G1 box; other site 1249526004672 putative GEF interaction site [polypeptide binding]; other site 1249526004673 GTP/Mg2+ binding site [chemical binding]; other site 1249526004674 Switch I region; other site 1249526004675 G2 box; other site 1249526004676 G3 box; other site 1249526004677 Switch II region; other site 1249526004678 G4 box; other site 1249526004679 G5 box; other site 1249526004680 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1249526004681 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 1249526004682 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1249526004683 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1249526004684 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249526004685 catalytic residue [active] 1249526004686 Hep_Hag; Region: Hep_Hag; pfam05658 1249526004687 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249526004688 trimer interface [polypeptide binding]; other site 1249526004689 Integrase core domain; Region: rve; pfam00665 1249526004690 Integrase core domain; Region: rve_3; pfam13683 1249526004691 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526004692 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526004693 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526004694 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526004695 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526004696 Integrase core domain; Region: rve; pfam00665 1249526004697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526004698 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1249526004699 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1249526004700 nucleophilic elbow; other site 1249526004701 catalytic triad; other site 1249526004702 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1249526004703 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1249526004704 active site 1249526004705 catalytic residues [active] 1249526004706 Regulatory P domain of the subtilisin-like proprotein convertases and other proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG4935 1249526004707 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1249526004708 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1249526004709 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1249526004710 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526004711 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526004712 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526004713 Integrase core domain; Region: rve_3; pfam13683 1249526004714 Predicted membrane protein [Function unknown]; Region: COG2259 1249526004715 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 1249526004716 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1249526004717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1249526004718 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249526004719 RNA polymerase sigma factor; Provisional; Region: PRK12530 1249526004720 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1249526004721 DNA binding residues [nucleotide binding] 1249526004722 Putative zinc-finger; Region: zf-HC2; pfam13490 1249526004723 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1249526004724 Na binding site [ion binding]; other site 1249526004725 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1249526004726 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1249526004727 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1249526004728 OstA-like protein; Region: OstA; pfam03968 1249526004729 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1249526004730 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1249526004731 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526004732 FeS/SAM binding site; other site 1249526004733 HemN C-terminal domain; Region: HemN_C; pfam06969 1249526004734 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1249526004735 Der GTPase activator; Provisional; Region: PRK05244 1249526004736 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1249526004737 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249526004738 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1249526004739 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1249526004740 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526004741 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249526004742 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526004743 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1249526004744 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1249526004745 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1249526004746 ATP binding site [chemical binding]; other site 1249526004747 putative Mg++ binding site [ion binding]; other site 1249526004748 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1249526004749 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1249526004750 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249526004751 metal binding triad; other site 1249526004752 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249526004753 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1249526004754 metal binding triad; other site 1249526004755 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1249526004756 YciI-like protein; Reviewed; Region: PRK11370 1249526004757 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1249526004758 intracellular septation protein A; Reviewed; Region: PRK00259 1249526004759 Protein of unknown function, DUF412; Region: DUF412; cl01183 1249526004760 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1249526004761 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1249526004762 ATP binding site [chemical binding]; other site 1249526004763 substrate interface [chemical binding]; other site 1249526004764 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1249526004765 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1249526004766 dimer interface [polypeptide binding]; other site 1249526004767 putative functional site; other site 1249526004768 putative MPT binding site; other site 1249526004769 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1249526004770 AAA domain; Region: AAA_14; pfam13173 1249526004771 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1249526004772 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1249526004773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526004774 Walker A/P-loop; other site 1249526004775 ATP binding site [chemical binding]; other site 1249526004776 Q-loop/lid; other site 1249526004777 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249526004778 ABC transporter signature motif; other site 1249526004779 Walker B; other site 1249526004780 D-loop; other site 1249526004781 ABC transporter; Region: ABC_tran_2; pfam12848 1249526004782 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1249526004783 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526004784 sequence-specific DNA binding site [nucleotide binding]; other site 1249526004785 salt bridge; other site 1249526004786 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249526004787 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1249526004788 putative C-terminal domain interface [polypeptide binding]; other site 1249526004789 putative GSH binding site (G-site) [chemical binding]; other site 1249526004790 putative dimer interface [polypeptide binding]; other site 1249526004791 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1249526004792 N-terminal domain interface [polypeptide binding]; other site 1249526004793 dimer interface [polypeptide binding]; other site 1249526004794 substrate binding pocket (H-site) [chemical binding]; other site 1249526004795 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1249526004796 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249526004797 active site 1249526004798 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1249526004799 catalytic core [active] 1249526004800 hypothetical protein; Provisional; Region: PRK05415 1249526004801 Domain of unknown function (DUF697); Region: DUF697; cl12064 1249526004802 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1249526004803 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1249526004804 FMN binding site [chemical binding]; other site 1249526004805 active site 1249526004806 catalytic residues [active] 1249526004807 substrate binding site [chemical binding]; other site 1249526004808 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1249526004809 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1249526004810 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1249526004811 putative metal binding site [ion binding]; other site 1249526004812 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1249526004813 HSP70 interaction site [polypeptide binding]; other site 1249526004814 EamA-like transporter family; Region: EamA; pfam00892 1249526004815 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249526004816 ligand binding site [chemical binding]; other site 1249526004817 translocation protein TolB; Provisional; Region: tolB; PRK01742 1249526004818 TolB amino-terminal domain; Region: TolB_N; pfam04052 1249526004819 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249526004820 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249526004821 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1249526004822 TolA C-terminal; Region: TolA; pfam06519 1249526004823 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249526004824 colicin uptake protein TolR; Provisional; Region: PRK11024 1249526004825 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1249526004826 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1249526004827 active site 1249526004828 cyd operon protein YbgE; Region: cyd_oper_ybgE; TIGR02112 1249526004829 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1249526004830 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1249526004831 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1249526004832 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1249526004833 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1249526004834 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1249526004835 ring oligomerisation interface [polypeptide binding]; other site 1249526004836 ATP/Mg binding site [chemical binding]; other site 1249526004837 stacking interactions; other site 1249526004838 hinge regions; other site 1249526004839 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1249526004840 oligomerisation interface [polypeptide binding]; other site 1249526004841 mobile loop; other site 1249526004842 roof hairpin; other site 1249526004843 Integrase core domain; Region: rve_3; pfam13683 1249526004844 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526004845 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526004846 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526004847 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1249526004848 active site 1249526004849 8-oxo-dGMP binding site [chemical binding]; other site 1249526004850 nudix motif; other site 1249526004851 metal binding site [ion binding]; metal-binding site 1249526004852 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1249526004853 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1249526004854 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1249526004855 nucleotide binding region [chemical binding]; other site 1249526004856 ATP-binding site [chemical binding]; other site 1249526004857 SEC-C motif; Region: SEC-C; pfam02810 1249526004858 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 1249526004859 Protein of unknown function (DUF721); Region: DUF721; cl02324 1249526004860 NlpE N-terminal domain; Region: NlpE; pfam04170 1249526004861 BolA-like protein; Region: BolA; cl00386 1249526004862 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1249526004863 RNA methyltransferase, RsmE family; Region: TIGR00046 1249526004864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1249526004865 hypothetical protein; Validated; Region: PRK00228 1249526004866 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1249526004867 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1249526004868 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1249526004869 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1249526004870 amino acid carrier protein; Region: agcS; TIGR00835 1249526004871 Staphylococcal nuclease homologues; Region: SNc; smart00318 1249526004872 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1249526004873 Catalytic site; other site 1249526004874 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1249526004875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526004876 Walker B; other site 1249526004877 D-loop; other site 1249526004878 H-loop/switch region; other site 1249526004879 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249526004880 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1249526004881 Walker A/P-loop; other site 1249526004882 ATP binding site [chemical binding]; other site 1249526004883 Q-loop/lid; other site 1249526004884 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1249526004885 putative active site [active] 1249526004886 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1249526004887 HlyD family secretion protein; Region: HlyD_3; pfam13437 1249526004888 Cupin-like domain; Region: Cupin_8; pfam13621 1249526004889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526004890 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1249526004891 Cupin superfamily protein; Region: Cupin_4; pfam08007 1249526004892 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1249526004893 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1249526004894 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1249526004895 catalytic residue [active] 1249526004896 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1249526004897 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1249526004898 active site 1249526004899 ADP/pyrophosphate binding site [chemical binding]; other site 1249526004900 dimerization interface [polypeptide binding]; other site 1249526004901 allosteric effector site; other site 1249526004902 fructose-1,6-bisphosphate binding site; other site 1249526004903 YwiC-like protein; Region: YwiC; pfam14256 1249526004904 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1249526004905 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1249526004906 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1249526004907 Ligand Binding Site [chemical binding]; other site 1249526004908 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1249526004909 active site residue [active] 1249526004910 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1249526004911 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1249526004912 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1249526004913 homodimer interface [polypeptide binding]; other site 1249526004914 NADP binding site [chemical binding]; other site 1249526004915 substrate binding site [chemical binding]; other site 1249526004916 integrase; Provisional; Region: int; PHA02601 1249526004917 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1249526004918 active site 1249526004919 DNA binding site [nucleotide binding] 1249526004920 Int/Topo IB signature motif; other site 1249526004921 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1249526004922 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249526004923 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1249526004924 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 1249526004925 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 1249526004926 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1249526004927 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1249526004928 dimer interface [polypeptide binding]; other site 1249526004929 ssDNA binding site [nucleotide binding]; other site 1249526004930 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1249526004931 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 1249526004932 Predicted transcriptional regulator [Transcription]; Region: COG2932 1249526004933 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1249526004934 Catalytic site [active] 1249526004935 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1249526004936 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1249526004937 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 1249526004938 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1249526004939 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1249526004940 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1249526004941 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1249526004942 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1249526004943 catalytic residues [active] 1249526004944 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1249526004945 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 1249526004946 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1249526004947 RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when...; Region: RhoGAP; cl02570 1249526004948 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1249526004949 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1249526004950 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1249526004951 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1249526004952 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1249526004953 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1249526004954 oligomer interface [polypeptide binding]; other site 1249526004955 active site residues [active] 1249526004956 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1249526004957 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1249526004958 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 1249526004959 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1249526004960 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1249526004961 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1249526004962 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 1249526004963 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1249526004964 ORF11CD3 domain; Region: ORF11CD3; pfam10549 1249526004965 Prophage antirepressor [Transcription]; Region: COG3617 1249526004966 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249526004967 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1249526004968 tape measure domain; Region: tape_meas_nterm; TIGR02675 1249526004969 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 1249526004970 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1249526004971 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1249526004972 Phage-related protein [Function unknown]; Region: gp18; COG4672 1249526004973 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1249526004974 MPN+ (JAMM) motif; other site 1249526004975 Zinc-binding site [ion binding]; other site 1249526004976 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1249526004977 NlpC/P60 family; Region: NLPC_P60; cl17555 1249526004978 Phage-related protein, tail component [Function unknown]; Region: COG4723 1249526004979 Phage-related protein, tail component [Function unknown]; Region: COG4733 1249526004980 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1249526004981 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1249526004982 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1249526004983 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1249526004984 Phage-related minor tail protein [Function unknown]; Region: COG5281 1249526004985 tape measure domain; Region: tape_meas_nterm; TIGR02675 1249526004986 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 1249526004987 Phage minor tail protein; Region: Phage_min_tail; cl01940 1249526004988 Phage-related protein [Function unknown]; Region: gp18; COG4672 1249526004989 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1249526004990 MPN+ (JAMM) motif; other site 1249526004991 Zinc-binding site [ion binding]; other site 1249526004992 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1249526004993 NlpC/P60 family; Region: NLPC_P60; cl17555 1249526004994 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 1249526004995 Phage-related protein, tail component [Function unknown]; Region: COG4733 1249526004996 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1249526004997 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1249526004998 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1249526004999 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1249526005000 GDP-binding site [chemical binding]; other site 1249526005001 ACT binding site; other site 1249526005002 IMP binding site; other site 1249526005003 FtsH protease regulator HflC; Provisional; Region: PRK11029 1249526005004 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1249526005005 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1249526005006 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1249526005007 HflK protein; Region: hflK; TIGR01933 1249526005008 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1249526005009 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249526005010 catalytic residues [active] 1249526005011 OmpW family; Region: OmpW; cl17427 1249526005012 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1249526005013 Clp amino terminal domain; Region: Clp_N; pfam02861 1249526005014 Clp amino terminal domain; Region: Clp_N; pfam02861 1249526005015 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526005016 Walker A motif; other site 1249526005017 ATP binding site [chemical binding]; other site 1249526005018 Walker B motif; other site 1249526005019 arginine finger; other site 1249526005020 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526005021 Walker A motif; other site 1249526005022 ATP binding site [chemical binding]; other site 1249526005023 Walker B motif; other site 1249526005024 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1249526005025 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1249526005026 substrate binding site [chemical binding]; other site 1249526005027 THF binding site; other site 1249526005028 zinc-binding site [ion binding]; other site 1249526005029 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1249526005030 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1249526005031 transmembrane helices; other site 1249526005032 cytidine deaminase; Provisional; Region: PRK09027 1249526005033 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1249526005034 active site 1249526005035 catalytic motif [active] 1249526005036 Zn binding site [ion binding]; other site 1249526005037 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 1249526005038 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249526005039 EamA-like transporter family; Region: EamA; pfam00892 1249526005040 EamA-like transporter family; Region: EamA; pfam00892 1249526005041 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1249526005042 homooctamer interface [polypeptide binding]; other site 1249526005043 active site 1249526005044 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1249526005045 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1249526005046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526005047 ATP binding site [chemical binding]; other site 1249526005048 Mg2+ binding site [ion binding]; other site 1249526005049 G-X-G motif; other site 1249526005050 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1249526005051 anchoring element; other site 1249526005052 dimer interface [polypeptide binding]; other site 1249526005053 ATP binding site [chemical binding]; other site 1249526005054 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 1249526005055 active site 1249526005056 putative metal-binding site [ion binding]; other site 1249526005057 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1249526005058 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1249526005059 HicB family; Region: HicB; pfam05534 1249526005060 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1249526005061 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1249526005062 DNA binding residues [nucleotide binding] 1249526005063 dimer interface [polypeptide binding]; other site 1249526005064 copper binding site [ion binding]; other site 1249526005065 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1249526005066 metal-binding site [ion binding] 1249526005067 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1249526005068 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1249526005069 metal-binding site [ion binding] 1249526005070 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1249526005071 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526005072 motif II; other site 1249526005073 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1249526005074 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1249526005075 dimerization interface 3.5A [polypeptide binding]; other site 1249526005076 active site 1249526005077 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1249526005078 homodecamer interface [polypeptide binding]; other site 1249526005079 active site 1249526005080 putative catalytic site residues [active] 1249526005081 zinc binding site [ion binding]; other site 1249526005082 GTP-CH-I/GFRP interaction surface; other site 1249526005083 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1249526005084 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1249526005085 antiporter inner membrane protein; Provisional; Region: PRK11670 1249526005086 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1249526005087 Walker A motif; other site 1249526005088 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1249526005089 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1249526005090 peptide binding site [polypeptide binding]; other site 1249526005091 hypothetical protein; Provisional; Region: PRK11111 1249526005092 periplasmic folding chaperone; Provisional; Region: PRK10788 1249526005093 SurA N-terminal domain; Region: SurA_N_3; cl07813 1249526005094 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1249526005095 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 1249526005096 16S/18S rRNA binding site [nucleotide binding]; other site 1249526005097 S13e-L30e interaction site [polypeptide binding]; other site 1249526005098 25S rRNA binding site [nucleotide binding]; other site 1249526005099 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1249526005100 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1249526005101 HemY protein N-terminus; Region: HemY_N; pfam07219 1249526005102 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1249526005103 TPR motif; other site 1249526005104 binding surface 1249526005105 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1249526005106 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1249526005107 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1249526005108 active site 1249526005109 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1249526005110 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1249526005111 domain interfaces; other site 1249526005112 active site 1249526005113 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1249526005114 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1249526005115 putative catalytic cysteine [active] 1249526005116 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1249526005117 putative active site [active] 1249526005118 metal binding site [ion binding]; metal-binding site 1249526005119 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1249526005120 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1249526005121 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1249526005122 Spore germination protein; Region: Spore_permease; cl17796 1249526005123 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1249526005124 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1249526005125 active site 1249526005126 metal binding site [ion binding]; metal-binding site 1249526005127 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1249526005128 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249526005129 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1249526005130 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1249526005131 catalytic site [active] 1249526005132 putative active site [active] 1249526005133 putative substrate binding site [chemical binding]; other site 1249526005134 dimer interface [polypeptide binding]; other site 1249526005135 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1249526005136 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1249526005137 active site 1249526005138 (T/H)XGH motif; other site 1249526005139 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1249526005140 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1249526005141 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1249526005142 putative protease; Provisional; Region: PRK15452 1249526005143 Peptidase family U32; Region: Peptidase_U32; pfam01136 1249526005144 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1249526005145 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1249526005146 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1249526005147 putative active site [active] 1249526005148 putative PHP Thumb interface [polypeptide binding]; other site 1249526005149 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1249526005150 generic binding surface II; other site 1249526005151 generic binding surface I; other site 1249526005152 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1249526005153 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1249526005154 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1249526005155 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1249526005156 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1249526005157 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1249526005158 interface (dimer of trimers) [polypeptide binding]; other site 1249526005159 Substrate-binding/catalytic site; other site 1249526005160 Zn-binding sites [ion binding]; other site 1249526005161 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1249526005162 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1249526005163 dimer interface [polypeptide binding]; other site 1249526005164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526005165 catalytic residue [active] 1249526005166 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1249526005167 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1249526005168 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1249526005169 RNA binding site [nucleotide binding]; other site 1249526005170 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1249526005171 multimer interface [polypeptide binding]; other site 1249526005172 Walker A motif; other site 1249526005173 ATP binding site [chemical binding]; other site 1249526005174 Walker B motif; other site 1249526005175 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1249526005176 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1249526005177 putative active site [active] 1249526005178 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1249526005179 putative active site [active] 1249526005180 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 1249526005181 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249526005182 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1249526005183 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1249526005184 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1249526005185 catalytic core [active] 1249526005186 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1249526005187 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1249526005188 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1249526005189 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1249526005190 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1249526005191 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1249526005192 active site 1249526005193 phosphorylation site [posttranslational modification] 1249526005194 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1249526005195 active pocket/dimerization site; other site 1249526005196 active site 1249526005197 phosphorylation site [posttranslational modification] 1249526005198 acetylornithine aminotransferase; Provisional; Region: PRK02627 1249526005199 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1249526005200 inhibitor-cofactor binding pocket; inhibition site 1249526005201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526005202 catalytic residue [active] 1249526005203 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1249526005204 nucleotide binding site [chemical binding]; other site 1249526005205 homohexameric interface [polypeptide binding]; other site 1249526005206 N-acetyl-L-glutamate binding site [chemical binding]; other site 1249526005207 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1249526005208 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1249526005209 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1249526005210 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1249526005211 putative C-terminal domain interface [polypeptide binding]; other site 1249526005212 putative dimer interface [polypeptide binding]; other site 1249526005213 putative GSH binding site (G-site) [chemical binding]; other site 1249526005214 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1249526005215 N-terminal domain interface [polypeptide binding]; other site 1249526005216 dimer interface [polypeptide binding]; other site 1249526005217 substrate binding pocket (H-site) [chemical binding]; other site 1249526005218 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249526005219 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1249526005220 putative active site [active] 1249526005221 putative FMN binding site [chemical binding]; other site 1249526005222 putative substrate binding site [chemical binding]; other site 1249526005223 putative catalytic residue [active] 1249526005224 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1249526005225 putative FMN binding site [chemical binding]; other site 1249526005226 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1249526005227 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1249526005228 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1249526005229 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249526005230 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526005231 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1249526005232 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1249526005233 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1249526005234 intersubunit interface [polypeptide binding]; other site 1249526005235 active site 1249526005236 catalytic residue [active] 1249526005237 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1249526005238 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1249526005239 Nucleoside recognition; Region: Gate; pfam07670 1249526005240 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1249526005241 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1249526005242 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1249526005243 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1249526005244 active site 1249526005245 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249526005246 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1249526005247 active site 1249526005248 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1249526005249 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1249526005250 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1249526005251 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1249526005252 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1249526005253 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1249526005254 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1249526005255 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1249526005256 active site 1249526005257 homodimer interface [polypeptide binding]; other site 1249526005258 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1249526005259 ligand binding site; other site 1249526005260 tetramer interface; other site 1249526005261 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1249526005262 active site 1249526005263 catalytic triad [active] 1249526005264 oxyanion hole [active] 1249526005265 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1249526005266 NeuB family; Region: NeuB; pfam03102 1249526005267 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1249526005268 NeuB binding interface [polypeptide binding]; other site 1249526005269 putative substrate binding site [chemical binding]; other site 1249526005270 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1249526005271 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1249526005272 putative trimer interface [polypeptide binding]; other site 1249526005273 putative CoA binding site [chemical binding]; other site 1249526005274 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1249526005275 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1249526005276 putative active site [active] 1249526005277 primosome assembly protein PriA; Validated; Region: PRK05580 1249526005278 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526005279 ATP binding site [chemical binding]; other site 1249526005280 putative Mg++ binding site [ion binding]; other site 1249526005281 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1249526005282 nucleotide binding region [chemical binding]; other site 1249526005283 ATP-binding site [chemical binding]; other site 1249526005284 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1249526005285 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1249526005286 EamA-like transporter family; Region: EamA; pfam00892 1249526005287 aminotransferase AlaT; Validated; Region: PRK09265 1249526005288 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1249526005289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526005290 homodimer interface [polypeptide binding]; other site 1249526005291 catalytic residue [active] 1249526005292 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1249526005293 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1249526005294 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1249526005295 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526005296 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526005297 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526005298 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526005299 Integrase core domain; Region: rve; pfam00665 1249526005300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526005301 Integrase core domain; Region: rve_3; pfam13683 1249526005302 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1249526005303 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526005304 FeS/SAM binding site; other site 1249526005305 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1249526005306 active site 1249526005307 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1249526005308 Ligand Binding Site [chemical binding]; other site 1249526005309 Membrane fusogenic activity; Region: BMFP; cl01115 1249526005310 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1249526005311 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1249526005312 active site 1249526005313 dimer interface [polypeptide binding]; other site 1249526005314 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1249526005315 dimer interface [polypeptide binding]; other site 1249526005316 active site 1249526005317 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1249526005318 AAA domain; Region: AAA_30; pfam13604 1249526005319 Family description; Region: UvrD_C_2; pfam13538 1249526005320 alanine racemase; Reviewed; Region: alr; PRK00053 1249526005321 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1249526005322 active site 1249526005323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249526005324 substrate binding site [chemical binding]; other site 1249526005325 catalytic residues [active] 1249526005326 dimer interface [polypeptide binding]; other site 1249526005327 superoxide dismutase; Provisional; Region: PRK10925 1249526005328 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1249526005329 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1249526005330 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1249526005331 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1249526005332 putative catalytic residues [active] 1249526005333 putative nucleotide binding site [chemical binding]; other site 1249526005334 putative aspartate binding site [chemical binding]; other site 1249526005335 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1249526005336 dimer interface [polypeptide binding]; other site 1249526005337 putative threonine allosteric regulatory site; other site 1249526005338 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1249526005339 putative threonine allosteric regulatory site; other site 1249526005340 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1249526005341 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1249526005342 homoserine kinase; Provisional; Region: PRK01212 1249526005343 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1249526005344 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1249526005345 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1249526005346 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1249526005347 active site 1249526005348 HIGH motif; other site 1249526005349 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1249526005350 KMSKS motif; other site 1249526005351 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1249526005352 tRNA binding surface [nucleotide binding]; other site 1249526005353 anticodon binding site; other site 1249526005354 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1249526005355 substrate binding site [chemical binding]; other site 1249526005356 Membrane transport protein; Region: Mem_trans; cl09117 1249526005357 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1249526005358 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1249526005359 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1249526005360 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1249526005361 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1249526005362 molybdopterin cofactor binding site; other site 1249526005363 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1249526005364 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1249526005365 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1249526005366 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1249526005367 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1249526005368 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1249526005369 glutathione reductase; Validated; Region: PRK06116 1249526005370 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249526005371 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249526005372 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1249526005373 hypothetical protein; Provisional; Region: PRK05208 1249526005374 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1249526005375 dimer interface [polypeptide binding]; other site 1249526005376 FMN binding site [chemical binding]; other site 1249526005377 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1249526005378 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526005379 Walker A/P-loop; other site 1249526005380 ATP binding site [chemical binding]; other site 1249526005381 Q-loop/lid; other site 1249526005382 ABC transporter signature motif; other site 1249526005383 Walker B; other site 1249526005384 D-loop; other site 1249526005385 H-loop/switch region; other site 1249526005386 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1249526005387 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1249526005388 active site 1249526005389 intersubunit interface [polypeptide binding]; other site 1249526005390 zinc binding site [ion binding]; other site 1249526005391 Na+ binding site [ion binding]; other site 1249526005392 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1249526005393 Phosphoglycerate kinase; Region: PGK; pfam00162 1249526005394 substrate binding site [chemical binding]; other site 1249526005395 hinge regions; other site 1249526005396 ADP binding site [chemical binding]; other site 1249526005397 catalytic site [active] 1249526005398 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1249526005399 Na2 binding site [ion binding]; other site 1249526005400 putative substrate binding site 1 [chemical binding]; other site 1249526005401 Na binding site 1 [ion binding]; other site 1249526005402 putative substrate binding site 2 [chemical binding]; other site 1249526005403 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1249526005404 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1249526005405 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1249526005406 active site 1249526005407 dimer interface [polypeptide binding]; other site 1249526005408 metal binding site [ion binding]; metal-binding site 1249526005409 shikimate kinase; Reviewed; Region: aroK; PRK00131 1249526005410 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1249526005411 ADP binding site [chemical binding]; other site 1249526005412 magnesium binding site [ion binding]; other site 1249526005413 putative shikimate binding site; other site 1249526005414 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1249526005415 Transglycosylase; Region: Transgly; pfam00912 1249526005416 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249526005417 Competence protein A; Region: Competence_A; pfam11104 1249526005418 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1249526005419 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1249526005420 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1249526005421 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1249526005422 putative RNA binding site [nucleotide binding]; other site 1249526005423 thiamine monophosphate kinase; Provisional; Region: PRK05731 1249526005424 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1249526005425 ATP binding site [chemical binding]; other site 1249526005426 dimerization interface [polypeptide binding]; other site 1249526005427 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1249526005428 tetramer interfaces [polypeptide binding]; other site 1249526005429 binuclear metal-binding site [ion binding]; other site 1249526005430 LysE type translocator; Region: LysE; cl00565 1249526005431 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1249526005432 RuvA N terminal domain; Region: RuvA_N; pfam01330 1249526005433 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1249526005434 helix-hairpin-helix signature motif; other site 1249526005435 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1249526005436 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1249526005437 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526005438 Walker A motif; other site 1249526005439 ATP binding site [chemical binding]; other site 1249526005440 Walker B motif; other site 1249526005441 arginine finger; other site 1249526005442 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1249526005443 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005444 dimer interface [polypeptide binding]; other site 1249526005445 conserved gate region; other site 1249526005446 putative PBP binding loops; other site 1249526005447 ABC-ATPase subunit interface; other site 1249526005448 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1249526005449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005450 dimer interface [polypeptide binding]; other site 1249526005451 conserved gate region; other site 1249526005452 putative PBP binding loops; other site 1249526005453 ABC-ATPase subunit interface; other site 1249526005454 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1249526005455 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1249526005456 substrate binding pocket [chemical binding]; other site 1249526005457 membrane-bound complex binding site; other site 1249526005458 hinge residues; other site 1249526005459 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1249526005460 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249526005461 Walker A/P-loop; other site 1249526005462 ATP binding site [chemical binding]; other site 1249526005463 Q-loop/lid; other site 1249526005464 ABC transporter signature motif; other site 1249526005465 Walker B; other site 1249526005466 D-loop; other site 1249526005467 H-loop/switch region; other site 1249526005468 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1249526005469 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1249526005470 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1249526005471 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1249526005472 DsbD alpha interface [polypeptide binding]; other site 1249526005473 catalytic residues [active] 1249526005474 Protein of unknown function, DUF462; Region: DUF462; cl01190 1249526005475 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1249526005476 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1249526005477 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1249526005478 acyl-activating enzyme (AAE) consensus motif; other site 1249526005479 putative AMP binding site [chemical binding]; other site 1249526005480 putative active site [active] 1249526005481 putative CoA binding site [chemical binding]; other site 1249526005482 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1249526005483 homotrimer interaction site [polypeptide binding]; other site 1249526005484 putative active site [active] 1249526005485 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1249526005486 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1249526005487 homodimer interface [polypeptide binding]; other site 1249526005488 substrate-cofactor binding pocket; other site 1249526005489 catalytic residue [active] 1249526005490 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1249526005491 putative GSH binding site [chemical binding]; other site 1249526005492 catalytic residues [active] 1249526005493 recombination protein RecR; Reviewed; Region: recR; PRK00076 1249526005494 RecR protein; Region: RecR; pfam02132 1249526005495 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1249526005496 putative active site [active] 1249526005497 putative metal-binding site [ion binding]; other site 1249526005498 tetramer interface [polypeptide binding]; other site 1249526005499 hypothetical protein; Validated; Region: PRK00153 1249526005500 recF protein; Region: recf; TIGR00611 1249526005501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526005502 Walker A/P-loop; other site 1249526005503 ATP binding site [chemical binding]; other site 1249526005504 Q-loop/lid; other site 1249526005505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526005506 ABC transporter signature motif; other site 1249526005507 Walker B; other site 1249526005508 D-loop; other site 1249526005509 H-loop/switch region; other site 1249526005510 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1249526005511 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 1249526005512 arogenate dehydrogenase; Region: PLN02256 1249526005513 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1249526005514 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249526005515 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1249526005516 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249526005517 putative active site [active] 1249526005518 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1249526005519 pyruvate kinase; Provisional; Region: PRK05826 1249526005520 active site 1249526005521 domain interfaces; other site 1249526005522 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1249526005523 catalytic core [active] 1249526005524 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1249526005525 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1249526005526 FMN binding site [chemical binding]; other site 1249526005527 active site 1249526005528 catalytic residues [active] 1249526005529 substrate binding site [chemical binding]; other site 1249526005530 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1249526005531 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1249526005532 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 1249526005533 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1249526005534 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1249526005535 ligand-binding site [chemical binding]; other site 1249526005536 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1249526005537 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1249526005538 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1249526005539 dimer interface [polypeptide binding]; other site 1249526005540 catalytic site [active] 1249526005541 putative active site [active] 1249526005542 putative substrate binding site [chemical binding]; other site 1249526005543 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1249526005544 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249526005545 dimer interface [polypeptide binding]; other site 1249526005546 active site 1249526005547 glutathione binding site [chemical binding]; other site 1249526005548 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1249526005549 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1249526005550 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1249526005551 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1249526005552 catalytic center binding site [active] 1249526005553 ATP binding site [chemical binding]; other site 1249526005554 poly(A) polymerase; Region: pcnB; TIGR01942 1249526005555 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1249526005556 active site 1249526005557 NTP binding site [chemical binding]; other site 1249526005558 metal binding triad [ion binding]; metal-binding site 1249526005559 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1249526005560 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1249526005561 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1249526005562 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1249526005563 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1249526005564 hypothetical protein; Validated; Region: PRK06886 1249526005565 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1249526005566 active site 1249526005567 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1249526005568 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1249526005569 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1249526005570 Ligand binding site; other site 1249526005571 oligomer interface; other site 1249526005572 thioredoxin reductase; Provisional; Region: PRK10262 1249526005573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249526005574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1249526005575 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1249526005576 Dak1 domain; Region: Dak1; pfam02733 1249526005577 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1249526005578 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1249526005579 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1249526005580 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1249526005581 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1249526005582 active site residue [active] 1249526005583 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1249526005584 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1249526005585 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1249526005586 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1249526005587 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1249526005588 cell division protein ZipA; Provisional; Region: PRK01741 1249526005589 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1249526005590 FtsZ protein binding site [polypeptide binding]; other site 1249526005591 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1249526005592 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1249526005593 nucleotide binding pocket [chemical binding]; other site 1249526005594 K-X-D-G motif; other site 1249526005595 catalytic site [active] 1249526005596 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1249526005597 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1249526005598 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1249526005599 Dimer interface [polypeptide binding]; other site 1249526005600 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1249526005601 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 1249526005602 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1249526005603 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1249526005604 dimer interface [polypeptide binding]; other site 1249526005605 active site 1249526005606 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1249526005607 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1249526005608 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1249526005609 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1249526005610 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1249526005611 TrkA-N domain; Region: TrkA_N; pfam02254 1249526005612 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1249526005613 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1249526005614 trimer interface; other site 1249526005615 sugar binding site [chemical binding]; other site 1249526005616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526005617 ABC transporter; Region: ABC_tran; pfam00005 1249526005618 Q-loop/lid; other site 1249526005619 ABC transporter signature motif; other site 1249526005620 Walker B; other site 1249526005621 D-loop; other site 1249526005622 H-loop/switch region; other site 1249526005623 TOBE domain; Region: TOBE_2; pfam08402 1249526005624 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1249526005625 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1249526005626 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1249526005627 anticodon binding site; other site 1249526005628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005629 dimer interface [polypeptide binding]; other site 1249526005630 conserved gate region; other site 1249526005631 putative PBP binding loops; other site 1249526005632 ABC-ATPase subunit interface; other site 1249526005633 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1249526005634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005635 dimer interface [polypeptide binding]; other site 1249526005636 conserved gate region; other site 1249526005637 putative PBP binding loops; other site 1249526005638 ABC-ATPase subunit interface; other site 1249526005639 alpha-amylase; Reviewed; Region: malS; PRK09505 1249526005640 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1249526005641 active site 1249526005642 catalytic site [active] 1249526005643 transcriptional regulator MalT; Provisional; Region: PRK04841 1249526005644 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1249526005645 DNA binding residues [nucleotide binding] 1249526005646 dimerization interface [polypeptide binding]; other site 1249526005647 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1249526005648 homodimer interface [polypeptide binding]; other site 1249526005649 maltodextrin phosphorylase; Provisional; Region: PRK14985 1249526005650 active site pocket [active] 1249526005651 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1249526005652 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1249526005653 putative transporter; Validated; Region: PRK03818 1249526005654 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1249526005655 TrkA-C domain; Region: TrkA_C; pfam02080 1249526005656 TrkA-C domain; Region: TrkA_C; pfam02080 1249526005657 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1249526005658 Predicted permease [General function prediction only]; Region: COG2056 1249526005659 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1249526005660 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1249526005661 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1249526005662 putative catalytic site [active] 1249526005663 putative phosphate binding site [ion binding]; other site 1249526005664 active site 1249526005665 metal binding site A [ion binding]; metal-binding site 1249526005666 DNA binding site [nucleotide binding] 1249526005667 putative AP binding site [nucleotide binding]; other site 1249526005668 putative metal binding site B [ion binding]; other site 1249526005669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1249526005670 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1249526005671 OstA-like protein; Region: OstA; cl00844 1249526005672 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1249526005673 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1249526005674 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1249526005675 Walker A/P-loop; other site 1249526005676 ATP binding site [chemical binding]; other site 1249526005677 Q-loop/lid; other site 1249526005678 ABC transporter signature motif; other site 1249526005679 Walker B; other site 1249526005680 D-loop; other site 1249526005681 H-loop/switch region; other site 1249526005682 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1249526005683 active site 1249526005684 phosphorylation site [posttranslational modification] 1249526005685 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1249526005686 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526005687 non-specific DNA binding site [nucleotide binding]; other site 1249526005688 salt bridge; other site 1249526005689 sequence-specific DNA binding site [nucleotide binding]; other site 1249526005690 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1249526005691 putative Zn2+ binding site [ion binding]; other site 1249526005692 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1249526005693 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1249526005694 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1249526005695 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1249526005696 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1249526005697 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1249526005698 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1249526005699 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1249526005700 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1249526005701 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1249526005702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526005703 Walker A/P-loop; other site 1249526005704 ATP binding site [chemical binding]; other site 1249526005705 Q-loop/lid; other site 1249526005706 ABC transporter signature motif; other site 1249526005707 Walker B; other site 1249526005708 D-loop; other site 1249526005709 H-loop/switch region; other site 1249526005710 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1249526005711 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1249526005712 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1249526005713 P loop; other site 1249526005714 GTP binding site [chemical binding]; other site 1249526005715 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1249526005716 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526005717 S-adenosylmethionine binding site [chemical binding]; other site 1249526005718 dsDNA-mimic protein; Reviewed; Region: PRK05094 1249526005719 Flavin Reductases; Region: FlaRed; cl00801 1249526005720 tellurite resistance protein TehB; Provisional; Region: PRK12335 1249526005721 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1249526005722 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526005723 S-adenosylmethionine binding site [chemical binding]; other site 1249526005724 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1249526005725 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1249526005726 dimerization interface [polypeptide binding]; other site 1249526005727 putative ATP binding site [chemical binding]; other site 1249526005728 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1249526005729 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1249526005730 Aspartase; Region: Aspartase; cd01357 1249526005731 active sites [active] 1249526005732 tetramer interface [polypeptide binding]; other site 1249526005733 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1249526005734 Part of AAA domain; Region: AAA_19; pfam13245 1249526005735 Family description; Region: UvrD_C_2; pfam13538 1249526005736 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1249526005737 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1249526005738 Walker A/P-loop; other site 1249526005739 ATP binding site [chemical binding]; other site 1249526005740 Q-loop/lid; other site 1249526005741 ABC transporter signature motif; other site 1249526005742 Walker B; other site 1249526005743 D-loop; other site 1249526005744 H-loop/switch region; other site 1249526005745 TOBE domain; Region: TOBE_2; pfam08402 1249526005746 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005747 dimer interface [polypeptide binding]; other site 1249526005748 conserved gate region; other site 1249526005749 putative PBP binding loops; other site 1249526005750 ABC-ATPase subunit interface; other site 1249526005751 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1249526005752 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005753 dimer interface [polypeptide binding]; other site 1249526005754 conserved gate region; other site 1249526005755 putative PBP binding loops; other site 1249526005756 ABC-ATPase subunit interface; other site 1249526005757 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1249526005758 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005759 dimer interface [polypeptide binding]; other site 1249526005760 conserved gate region; other site 1249526005761 putative PBP binding loops; other site 1249526005762 ABC-ATPase subunit interface; other site 1249526005763 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1249526005764 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249526005765 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526005766 dimer interface [polypeptide binding]; other site 1249526005767 conserved gate region; other site 1249526005768 ABC-ATPase subunit interface; other site 1249526005769 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1249526005770 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526005771 Walker A/P-loop; other site 1249526005772 ATP binding site [chemical binding]; other site 1249526005773 Q-loop/lid; other site 1249526005774 ABC transporter signature motif; other site 1249526005775 Walker B; other site 1249526005776 D-loop; other site 1249526005777 H-loop/switch region; other site 1249526005778 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249526005779 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526005780 Walker A/P-loop; other site 1249526005781 ATP binding site [chemical binding]; other site 1249526005782 Q-loop/lid; other site 1249526005783 ABC transporter signature motif; other site 1249526005784 Walker B; other site 1249526005785 D-loop; other site 1249526005786 H-loop/switch region; other site 1249526005787 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1249526005788 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1249526005789 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1249526005790 N-terminal plug; other site 1249526005791 ligand-binding site [chemical binding]; other site 1249526005792 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1249526005793 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249526005794 intersubunit interface [polypeptide binding]; other site 1249526005795 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249526005796 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526005797 ABC-ATPase subunit interface; other site 1249526005798 dimer interface [polypeptide binding]; other site 1249526005799 putative PBP binding regions; other site 1249526005800 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 1249526005801 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249526005802 Walker A/P-loop; other site 1249526005803 ATP binding site [chemical binding]; other site 1249526005804 Q-loop/lid; other site 1249526005805 ABC transporter signature motif; other site 1249526005806 Walker B; other site 1249526005807 D-loop; other site 1249526005808 H-loop/switch region; other site 1249526005809 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1249526005810 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1249526005811 active site 1249526005812 substrate binding site [chemical binding]; other site 1249526005813 cosubstrate binding site; other site 1249526005814 catalytic site [active] 1249526005815 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1249526005816 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1249526005817 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1249526005818 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1249526005819 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1249526005820 dimer interface [polypeptide binding]; other site 1249526005821 active site 1249526005822 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1249526005823 folate binding site [chemical binding]; other site 1249526005824 methionine synthase; Provisional; Region: PRK01207 1249526005825 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1249526005826 substrate binding site [chemical binding]; other site 1249526005827 THF binding site; other site 1249526005828 zinc-binding site [ion binding]; other site 1249526005829 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1249526005830 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1249526005831 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1249526005832 putative methyltransferase; Provisional; Region: PRK10864 1249526005833 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1249526005834 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1249526005835 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1249526005836 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1249526005837 active site 1249526005838 dimerization interface [polypeptide binding]; other site 1249526005839 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1249526005840 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1249526005841 TPP-binding site; other site 1249526005842 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1249526005843 PYR/PP interface [polypeptide binding]; other site 1249526005844 dimer interface [polypeptide binding]; other site 1249526005845 TPP binding site [chemical binding]; other site 1249526005846 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1249526005847 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1249526005848 Carbon starvation protein CstA; Region: CstA; pfam02554 1249526005849 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1249526005850 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1249526005851 active site 1249526005852 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1249526005853 conserved cys residue [active] 1249526005854 BioY family; Region: BioY; pfam02632 1249526005855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526005856 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1249526005857 putative substrate translocation pore; other site 1249526005858 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1249526005859 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1249526005860 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1249526005861 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1249526005862 active site 1249526005863 dimer interface [polypeptide binding]; other site 1249526005864 motif 1; other site 1249526005865 motif 2; other site 1249526005866 motif 3; other site 1249526005867 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1249526005868 anticodon binding site; other site 1249526005869 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1249526005870 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249526005871 FtsX-like permease family; Region: FtsX; pfam02687 1249526005872 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1249526005873 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1249526005874 Walker A/P-loop; other site 1249526005875 ATP binding site [chemical binding]; other site 1249526005876 Q-loop/lid; other site 1249526005877 ABC transporter signature motif; other site 1249526005878 Walker B; other site 1249526005879 D-loop; other site 1249526005880 H-loop/switch region; other site 1249526005881 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1249526005882 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1249526005883 FtsX-like permease family; Region: FtsX; pfam02687 1249526005884 glycerate dehydrogenase; Provisional; Region: PRK06932 1249526005885 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1249526005886 putative ligand binding site [chemical binding]; other site 1249526005887 putative NAD binding site [chemical binding]; other site 1249526005888 catalytic site [active] 1249526005889 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1249526005890 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1249526005891 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1249526005892 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1249526005893 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1249526005894 binding surface 1249526005895 TPR motif; other site 1249526005896 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1249526005897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526005898 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 1249526005899 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1249526005900 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1249526005901 RF-1 domain; Region: RF-1; pfam00472 1249526005902 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1249526005903 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1249526005904 glutamine binding [chemical binding]; other site 1249526005905 catalytic triad [active] 1249526005906 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1249526005907 RmuC family; Region: RmuC; pfam02646 1249526005908 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1249526005909 hypothetical protein; Provisional; Region: PRK07101 1249526005910 recombinase A; Provisional; Region: recA; PRK09354 1249526005911 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1249526005912 hexamer interface [polypeptide binding]; other site 1249526005913 Walker A motif; other site 1249526005914 ATP binding site [chemical binding]; other site 1249526005915 Walker B motif; other site 1249526005916 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1249526005917 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1249526005918 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249526005919 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1249526005920 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249526005921 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1249526005922 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1249526005923 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1249526005924 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1249526005925 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1249526005926 shikimate binding site; other site 1249526005927 NAD(P) binding site [chemical binding]; other site 1249526005928 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1249526005929 Part of AAA domain; Region: AAA_19; pfam13245 1249526005930 Family description; Region: UvrD_C_2; pfam13538 1249526005931 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1249526005932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249526005933 NAD(P) binding site [chemical binding]; other site 1249526005934 active site 1249526005935 arginine repressor; Provisional; Region: PRK05066 1249526005936 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1249526005937 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1249526005938 malate dehydrogenase; Provisional; Region: PRK05086 1249526005939 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1249526005940 NAD binding site [chemical binding]; other site 1249526005941 dimerization interface [polypeptide binding]; other site 1249526005942 Substrate binding site [chemical binding]; other site 1249526005943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1249526005944 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1249526005945 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1249526005946 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526005947 motif I; other site 1249526005948 motif II; other site 1249526005949 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249526005950 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1249526005951 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1249526005952 rRNA binding site [nucleotide binding]; other site 1249526005953 predicted 30S ribosome binding site; other site 1249526005954 Predicted flavoproteins [General function prediction only]; Region: COG2081 1249526005955 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1249526005956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1249526005957 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1249526005958 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1249526005959 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 1249526005960 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1249526005961 LexA regulated protein; Provisional; Region: PRK11675 1249526005962 flavodoxin FldA; Validated; Region: PRK09267 1249526005963 ferric uptake regulator; Provisional; Region: fur; PRK09462 1249526005964 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1249526005965 metal binding site 2 [ion binding]; metal-binding site 1249526005966 putative DNA binding helix; other site 1249526005967 metal binding site 1 [ion binding]; metal-binding site 1249526005968 dimer interface [polypeptide binding]; other site 1249526005969 structural Zn2+ binding site [ion binding]; other site 1249526005970 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1249526005971 mce related protein; Region: MCE; pfam02470 1249526005972 mce related protein; Region: MCE; pfam02470 1249526005973 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1249526005974 mce related protein; Region: MCE; pfam02470 1249526005975 mce related protein; Region: MCE; pfam02470 1249526005976 mce related protein; Region: MCE; pfam02470 1249526005977 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1249526005978 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1249526005979 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1249526005980 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1249526005981 Walker A/P-loop; other site 1249526005982 ATP binding site [chemical binding]; other site 1249526005983 Q-loop/lid; other site 1249526005984 ABC transporter signature motif; other site 1249526005985 Walker B; other site 1249526005986 D-loop; other site 1249526005987 H-loop/switch region; other site 1249526005988 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1249526005989 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1249526005990 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1249526005991 Walker A motif; other site 1249526005992 ATP binding site [chemical binding]; other site 1249526005993 Walker B motif; other site 1249526005994 arginine finger; other site 1249526005995 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 1249526005996 DnaA box-binding interface [nucleotide binding]; other site 1249526005997 DNA polymerase III subunit beta; Validated; Region: PRK05643 1249526005998 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 1249526005999 putative DNA binding surface [nucleotide binding]; other site 1249526006000 dimer interface [polypeptide binding]; other site 1249526006001 beta-clamp/clamp loader binding surface; other site 1249526006002 beta-clamp/translesion DNA polymerase binding surface; other site 1249526006003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1249526006004 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1249526006005 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1249526006006 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1249526006007 dimer interface [polypeptide binding]; other site 1249526006008 motif 1; other site 1249526006009 active site 1249526006010 motif 2; other site 1249526006011 motif 3; other site 1249526006012 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1249526006013 anticodon binding site; other site 1249526006014 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1249526006015 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1249526006016 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1249526006017 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526006018 non-specific DNA binding site [nucleotide binding]; other site 1249526006019 salt bridge; other site 1249526006020 sequence-specific DNA binding site [nucleotide binding]; other site 1249526006021 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1249526006022 argininosuccinate lyase; Provisional; Region: PRK04833 1249526006023 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1249526006024 active sites [active] 1249526006025 tetramer interface [polypeptide binding]; other site 1249526006026 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1249526006027 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 1249526006028 Ligand Binding Site [chemical binding]; other site 1249526006029 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1249526006030 active site 1249526006031 NTP binding site [chemical binding]; other site 1249526006032 metal binding triad [ion binding]; metal-binding site 1249526006033 antibiotic binding site [chemical binding]; other site 1249526006034 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1249526006035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1249526006036 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1249526006037 ApbE family; Region: ApbE; pfam02424 1249526006038 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1249526006039 active site 1249526006040 NTP binding site [chemical binding]; other site 1249526006041 metal binding triad [ion binding]; metal-binding site 1249526006042 antibiotic binding site [chemical binding]; other site 1249526006043 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1249526006044 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1249526006045 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1249526006046 FAD binding pocket [chemical binding]; other site 1249526006047 FAD binding motif [chemical binding]; other site 1249526006048 phosphate binding motif [ion binding]; other site 1249526006049 beta-alpha-beta structure motif; other site 1249526006050 NAD binding pocket [chemical binding]; other site 1249526006051 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1249526006052 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1249526006053 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1249526006054 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1249526006055 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1249526006056 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1249526006057 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1249526006058 E3 interaction surface; other site 1249526006059 lipoyl attachment site [posttranslational modification]; other site 1249526006060 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1249526006061 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1249526006062 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1249526006063 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1249526006064 CTP synthetase; Validated; Region: pyrG; PRK05380 1249526006065 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1249526006066 Catalytic site [active] 1249526006067 active site 1249526006068 UTP binding site [chemical binding]; other site 1249526006069 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1249526006070 active site 1249526006071 putative oxyanion hole; other site 1249526006072 catalytic triad [active] 1249526006073 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1249526006074 active site 1249526006075 homotetramer interface [polypeptide binding]; other site 1249526006076 homodimer interface [polypeptide binding]; other site 1249526006077 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1249526006078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526006079 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1249526006080 substrate binding site [chemical binding]; other site 1249526006081 dimerization interface [polypeptide binding]; other site 1249526006082 dUMP phosphatase; Provisional; Region: PRK09449 1249526006083 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526006084 motif II; other site 1249526006085 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1249526006086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526006087 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1249526006088 dimerization interface [polypeptide binding]; other site 1249526006089 substrate binding pocket [chemical binding]; other site 1249526006090 GTPase RsgA; Reviewed; Region: PRK12288 1249526006091 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1249526006092 RNA binding site [nucleotide binding]; other site 1249526006093 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1249526006094 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1249526006095 GTP/Mg2+ binding site [chemical binding]; other site 1249526006096 G4 box; other site 1249526006097 G5 box; other site 1249526006098 G1 box; other site 1249526006099 Switch I region; other site 1249526006100 G2 box; other site 1249526006101 G3 box; other site 1249526006102 Switch II region; other site 1249526006103 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1249526006104 RNA/DNA hybrid binding site [nucleotide binding]; other site 1249526006105 active site 1249526006106 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1249526006107 nucleotide binding site/active site [active] 1249526006108 HIT family signature motif; other site 1249526006109 catalytic residue [active] 1249526006110 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1249526006111 putative dimer interface [polypeptide binding]; other site 1249526006112 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1249526006113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1249526006114 Peptidase M15; Region: Peptidase_M15_3; cl01194 1249526006115 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1249526006116 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1249526006117 carboxy-terminal protease; Provisional; Region: PRK11186 1249526006118 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1249526006119 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1249526006120 protein binding site [polypeptide binding]; other site 1249526006121 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1249526006122 Catalytic dyad [active] 1249526006123 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1249526006124 ProQ/FINO family; Region: ProQ; pfam04352 1249526006125 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1249526006126 DNA-binding site [nucleotide binding]; DNA binding site 1249526006127 RNA-binding motif; other site 1249526006128 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1249526006129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526006130 putative substrate translocation pore; other site 1249526006131 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1249526006132 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1249526006133 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1249526006134 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1249526006135 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526006136 motif I; other site 1249526006137 active site 1249526006138 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1249526006139 acetylornithine deacetylase; Provisional; Region: PRK05111 1249526006140 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1249526006141 metal binding site [ion binding]; metal-binding site 1249526006142 putative dimer interface [polypeptide binding]; other site 1249526006143 outer membrane lipoprotein; Provisional; Region: PRK11023 1249526006144 BON domain; Region: BON; pfam04972 1249526006145 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1249526006146 dimer interface [polypeptide binding]; other site 1249526006147 active site 1249526006148 hypothetical protein; Reviewed; Region: PRK12497 1249526006149 LppC putative lipoprotein; Region: LppC; pfam04348 1249526006150 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1249526006151 putative ligand binding site [chemical binding]; other site 1249526006152 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1249526006153 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1249526006154 putative SAM binding site [chemical binding]; other site 1249526006155 putative homodimer interface [polypeptide binding]; other site 1249526006156 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1249526006157 putative substrate translocation pore; other site 1249526006158 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1249526006159 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1249526006160 Na binding site [ion binding]; other site 1249526006161 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1249526006162 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1249526006163 Bacterial transcriptional regulator; Region: IclR; pfam01614 1249526006164 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1249526006165 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1249526006166 Cell division protein ZapA; Region: ZapA; pfam05164 1249526006167 hypothetical protein; Reviewed; Region: PRK01736 1249526006168 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1249526006169 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1249526006170 substrate binding site [chemical binding]; other site 1249526006171 active site 1249526006172 Protein of unknown function (DUF416); Region: DUF416; cl01166 1249526006173 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1249526006174 IHF dimer interface [polypeptide binding]; other site 1249526006175 IHF - DNA interface [nucleotide binding]; other site 1249526006176 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1249526006177 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1249526006178 homodimer interface [polypeptide binding]; other site 1249526006179 oligonucleotide binding site [chemical binding]; other site 1249526006180 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1249526006181 Isochorismatase family; Region: Isochorismatase; pfam00857 1249526006182 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1249526006183 catalytic triad [active] 1249526006184 conserved cis-peptide bond; other site 1249526006185 Cupin; Region: Cupin_6; pfam12852 1249526006186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526006187 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1249526006188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1249526006189 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1249526006190 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249526006191 intersubunit interface [polypeptide binding]; other site 1249526006192 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1249526006193 metal binding site [ion binding]; metal-binding site 1249526006194 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1249526006195 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 1249526006196 PhnA protein; Region: PhnA; pfam03831 1249526006197 ribonuclease R; Region: RNase_R; TIGR02063 1249526006198 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1249526006199 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1249526006200 RNB domain; Region: RNB; pfam00773 1249526006201 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1249526006202 RNA binding site [nucleotide binding]; other site 1249526006203 cell division protein MraZ; Reviewed; Region: PRK00326 1249526006204 MraZ protein; Region: MraZ; pfam02381 1249526006205 MraZ protein; Region: MraZ; pfam02381 1249526006206 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1249526006207 MraW methylase family; Region: Methyltransf_5; pfam01795 1249526006208 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1249526006209 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249526006210 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249526006211 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1249526006212 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1249526006213 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249526006214 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249526006215 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249526006216 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1249526006217 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249526006218 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249526006219 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249526006220 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1249526006221 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1249526006222 Mg++ binding site [ion binding]; other site 1249526006223 putative catalytic motif [active] 1249526006224 putative substrate binding site [chemical binding]; other site 1249526006225 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1249526006226 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249526006227 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249526006228 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1249526006229 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1249526006230 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1249526006231 active site 1249526006232 homodimer interface [polypeptide binding]; other site 1249526006233 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1249526006234 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1249526006235 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1249526006236 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1249526006237 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1249526006238 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1249526006239 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1249526006240 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1249526006241 Cell division protein FtsQ; Region: FtsQ; pfam03799 1249526006242 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1249526006243 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249526006244 nucleotide binding site [chemical binding]; other site 1249526006245 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1249526006246 Cell division protein FtsA; Region: FtsA; pfam14450 1249526006247 cell division protein FtsZ; Validated; Region: PRK09330 1249526006248 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1249526006249 nucleotide binding site [chemical binding]; other site 1249526006250 SulA interaction site; other site 1249526006251 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1249526006252 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1249526006253 recombination and repair protein; Provisional; Region: PRK10869 1249526006254 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1249526006255 Walker A/P-loop; other site 1249526006256 ATP binding site [chemical binding]; other site 1249526006257 Q-loop/lid; other site 1249526006258 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1249526006259 ABC transporter signature motif; other site 1249526006260 Walker B; other site 1249526006261 D-loop; other site 1249526006262 H-loop/switch region; other site 1249526006263 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1249526006264 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1249526006265 HIGH motif; other site 1249526006266 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1249526006267 active site 1249526006268 KMSKS motif; other site 1249526006269 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1249526006270 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1249526006271 substrate binding pocket [chemical binding]; other site 1249526006272 membrane-bound complex binding site; other site 1249526006273 hinge residues; other site 1249526006274 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1249526006275 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1249526006276 catalytic residue [active] 1249526006277 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1249526006278 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1249526006279 dimerization interface [polypeptide binding]; other site 1249526006280 active site 1249526006281 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1249526006282 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249526006283 DNA polymerase III subunit chi; Validated; Region: PRK05728 1249526006284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1249526006285 Coenzyme A binding pocket [chemical binding]; other site 1249526006286 Fic family protein [Function unknown]; Region: COG3177 1249526006287 Fic/DOC family; Region: Fic; pfam02661 1249526006288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1249526006289 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1249526006290 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1249526006291 HIGH motif; other site 1249526006292 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1249526006293 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1249526006294 active site 1249526006295 KMSKS motif; other site 1249526006296 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1249526006297 tRNA binding surface [nucleotide binding]; other site 1249526006298 anticodon binding site; other site 1249526006299 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1249526006300 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 1249526006301 active site 1249526006302 catalytic triad [active] 1249526006303 oxyanion hole [active] 1249526006304 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1249526006305 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249526006306 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1249526006307 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1249526006308 aspartate racemase; Region: asp_race; TIGR00035 1249526006309 ORF6N domain; Region: ORF6N; pfam10543 1249526006310 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1249526006311 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1249526006312 putative active site [active] 1249526006313 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1249526006314 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1249526006315 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1249526006316 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1249526006317 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1249526006318 active site 1249526006319 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1249526006320 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1249526006321 dimer interface [polypeptide binding]; other site 1249526006322 ADP-ribose binding site [chemical binding]; other site 1249526006323 active site 1249526006324 nudix motif; other site 1249526006325 metal binding site [ion binding]; metal-binding site 1249526006326 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1249526006327 RNA binding surface [nucleotide binding]; other site 1249526006328 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1249526006329 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1249526006330 dimerization interface [polypeptide binding]; other site 1249526006331 domain crossover interface; other site 1249526006332 redox-dependent activation switch; other site 1249526006333 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1249526006334 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1249526006335 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1249526006336 metal binding site [ion binding]; metal-binding site 1249526006337 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1249526006338 dimer interface [polypeptide binding]; other site 1249526006339 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1249526006340 metal binding site [ion binding]; metal-binding site 1249526006341 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1249526006342 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1249526006343 substrate binding site [chemical binding]; other site 1249526006344 glutamase interaction surface [polypeptide binding]; other site 1249526006345 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1249526006346 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1249526006347 catalytic residues [active] 1249526006348 BRO family, N-terminal domain; Region: Bro-N; smart01040 1249526006349 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1249526006350 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1249526006351 putative active site [active] 1249526006352 oxyanion strand; other site 1249526006353 catalytic triad [active] 1249526006354 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1249526006355 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526006356 active site 1249526006357 motif I; other site 1249526006358 motif II; other site 1249526006359 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1249526006360 putative active site pocket [active] 1249526006361 4-fold oligomerization interface [polypeptide binding]; other site 1249526006362 metal binding residues [ion binding]; metal-binding site 1249526006363 3-fold/trimer interface [polypeptide binding]; other site 1249526006364 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1249526006365 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1249526006366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526006367 homodimer interface [polypeptide binding]; other site 1249526006368 catalytic residue [active] 1249526006369 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1249526006370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249526006371 Coenzyme A binding pocket [chemical binding]; other site 1249526006372 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1249526006373 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1249526006374 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1249526006375 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526006376 S-adenosylmethionine binding site [chemical binding]; other site 1249526006377 DNA polymerase III subunit psi; Validated; Region: PRK06856 1249526006378 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1249526006379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249526006380 Coenzyme A binding pocket [chemical binding]; other site 1249526006381 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1249526006382 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1249526006383 G1 box; other site 1249526006384 putative GEF interaction site [polypeptide binding]; other site 1249526006385 GTP/Mg2+ binding site [chemical binding]; other site 1249526006386 Switch I region; other site 1249526006387 G2 box; other site 1249526006388 G3 box; other site 1249526006389 Switch II region; other site 1249526006390 G4 box; other site 1249526006391 G5 box; other site 1249526006392 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1249526006393 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1249526006394 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1249526006395 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249526006396 catalytic residue [active] 1249526006397 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1249526006398 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526006399 active site 1249526006400 motif I; other site 1249526006401 motif II; other site 1249526006402 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1249526006403 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1249526006404 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1249526006405 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1249526006406 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249526006407 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1249526006408 DNA binding residues [nucleotide binding] 1249526006409 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1249526006410 Phage associated DNA primase [General function prediction only]; Region: COG3378 1249526006411 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1249526006412 non-specific DNA binding site [nucleotide binding]; other site 1249526006413 salt bridge; other site 1249526006414 sequence-specific DNA binding site [nucleotide binding]; other site 1249526006415 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1249526006416 Autotransporter beta-domain; Region: Autotransporter; cl17461 1249526006417 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1249526006418 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1249526006419 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1249526006420 trimer interface [polypeptide binding]; other site 1249526006421 active site 1249526006422 substrate binding site [chemical binding]; other site 1249526006423 CoA binding site [chemical binding]; other site 1249526006424 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1249526006425 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1249526006426 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1249526006427 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1249526006428 SecA binding site; other site 1249526006429 Preprotein binding site; other site 1249526006430 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1249526006431 active site residue [active] 1249526006432 trigger factor; Provisional; Region: tig; PRK01490 1249526006433 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249526006434 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1249526006435 elongation factor Tu; Reviewed; Region: PRK00049 1249526006436 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1249526006437 G1 box; other site 1249526006438 GEF interaction site [polypeptide binding]; other site 1249526006439 GTP/Mg2+ binding site [chemical binding]; other site 1249526006440 Switch I region; other site 1249526006441 G2 box; other site 1249526006442 G3 box; other site 1249526006443 Switch II region; other site 1249526006444 G4 box; other site 1249526006445 G5 box; other site 1249526006446 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1249526006447 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1249526006448 Antibiotic Binding Site [chemical binding]; other site 1249526006449 elongation factor G; Reviewed; Region: PRK00007 1249526006450 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1249526006451 G1 box; other site 1249526006452 putative GEF interaction site [polypeptide binding]; other site 1249526006453 GTP/Mg2+ binding site [chemical binding]; other site 1249526006454 Switch I region; other site 1249526006455 G2 box; other site 1249526006456 G3 box; other site 1249526006457 Switch II region; other site 1249526006458 G4 box; other site 1249526006459 G5 box; other site 1249526006460 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1249526006461 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1249526006462 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1249526006463 30S ribosomal protein S7; Validated; Region: PRK05302 1249526006464 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1249526006465 S17 interaction site [polypeptide binding]; other site 1249526006466 S8 interaction site; other site 1249526006467 16S rRNA interaction site [nucleotide binding]; other site 1249526006468 streptomycin interaction site [chemical binding]; other site 1249526006469 23S rRNA interaction site [nucleotide binding]; other site 1249526006470 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1249526006471 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249526006472 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1249526006473 putative active site [active] 1249526006474 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1249526006475 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1249526006476 putative active site [active] 1249526006477 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1249526006478 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1249526006479 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1249526006480 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1249526006481 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1249526006482 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1249526006483 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526006484 ATP binding site [chemical binding]; other site 1249526006485 putative Mg++ binding site [ion binding]; other site 1249526006486 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1249526006487 nucleotide binding region [chemical binding]; other site 1249526006488 ATP-binding site [chemical binding]; other site 1249526006489 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1249526006490 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1249526006491 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526006492 S-adenosylmethionine binding site [chemical binding]; other site 1249526006493 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1249526006494 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1249526006495 Divergent AAA domain; Region: AAA_4; pfam04326 1249526006496 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1249526006497 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526006498 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249526006499 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526006500 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1249526006501 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1249526006502 active site 1249526006503 DNA binding site [nucleotide binding] 1249526006504 Int/Topo IB signature motif; other site 1249526006505 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1249526006506 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526006507 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1249526006508 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1249526006509 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1249526006510 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1249526006511 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1249526006512 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1249526006513 active pocket/dimerization site; other site 1249526006514 active site 1249526006515 phosphorylation site [posttranslational modification] 1249526006516 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1249526006517 active site 1249526006518 phosphorylation site [posttranslational modification] 1249526006519 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1249526006520 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1249526006521 hypothetical protein; Provisional; Region: PRK02913 1249526006522 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1249526006523 triosephosphate isomerase; Provisional; Region: PRK14567 1249526006524 substrate binding site [chemical binding]; other site 1249526006525 dimer interface [polypeptide binding]; other site 1249526006526 catalytic triad [active] 1249526006527 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1249526006528 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1249526006529 Permutation of conserved domain; other site 1249526006530 active site 1249526006531 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1249526006532 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1249526006533 Predicted membrane protein [Function unknown]; Region: COG1238 1249526006534 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249526006535 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1249526006536 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1249526006537 Peptidase family M23; Region: Peptidase_M23; pfam01551 1249526006538 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1249526006539 acyl carrier protein; Provisional; Region: acpP; PRK00982 1249526006540 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1249526006541 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1249526006542 substrate binding site [chemical binding]; other site 1249526006543 hexamer interface [polypeptide binding]; other site 1249526006544 metal binding site [ion binding]; metal-binding site 1249526006545 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1249526006546 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1249526006547 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1249526006548 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1249526006549 substrate binding pocket [chemical binding]; other site 1249526006550 membrane-bound complex binding site; other site 1249526006551 hinge residues; other site 1249526006552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526006553 dimer interface [polypeptide binding]; other site 1249526006554 putative PBP binding loops; other site 1249526006555 ABC-ATPase subunit interface; other site 1249526006556 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1249526006557 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1249526006558 Walker A/P-loop; other site 1249526006559 ATP binding site [chemical binding]; other site 1249526006560 Q-loop/lid; other site 1249526006561 ABC transporter signature motif; other site 1249526006562 Walker B; other site 1249526006563 D-loop; other site 1249526006564 H-loop/switch region; other site 1249526006565 YGGT family; Region: YGGT; pfam02325 1249526006566 YGGT family; Region: YGGT; pfam02325 1249526006567 hypothetical protein; Provisional; Region: PRK11702 1249526006568 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526006569 S-adenosylmethionine binding site [chemical binding]; other site 1249526006570 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1249526006571 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1249526006572 dimer interface [polypeptide binding]; other site 1249526006573 active site 1249526006574 CoA binding pocket [chemical binding]; other site 1249526006575 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1249526006576 dimer interface [polypeptide binding]; other site 1249526006577 allosteric magnesium binding site [ion binding]; other site 1249526006578 active site 1249526006579 aspartate-rich active site metal binding site; other site 1249526006580 Schiff base residues; other site 1249526006581 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1249526006582 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1249526006583 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1249526006584 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1249526006585 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1249526006586 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1249526006587 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1249526006588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1249526006589 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1249526006590 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1249526006591 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526006592 S-adenosylmethionine binding site [chemical binding]; other site 1249526006593 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1249526006594 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1249526006595 Cl binding site [ion binding]; other site 1249526006596 oligomer interface [polypeptide binding]; other site 1249526006597 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1249526006598 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 1249526006599 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1249526006600 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1249526006601 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1249526006602 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1249526006603 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1249526006604 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1249526006605 substrate binding site [chemical binding]; other site 1249526006606 oxyanion hole (OAH) forming residues; other site 1249526006607 trimer interface [polypeptide binding]; other site 1249526006608 Transglycosylase; Region: Transgly; pfam00912 1249526006609 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249526006610 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1249526006611 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1249526006612 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1249526006613 dimerization interface [polypeptide binding]; other site 1249526006614 DPS ferroxidase diiron center [ion binding]; other site 1249526006615 ion pore; other site 1249526006616 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1249526006617 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1249526006618 S-adenosylmethionine binding site [chemical binding]; other site 1249526006619 ornithine carbamoyltransferase; Provisional; Region: PRK01713 1249526006620 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1249526006621 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1249526006622 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1249526006623 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1249526006624 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1249526006625 Predicted membrane protein [Function unknown]; Region: COG2259 1249526006626 DNA utilization protein GntX; Provisional; Region: PRK11595 1249526006627 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1249526006628 active site 1249526006629 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526006630 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1249526006631 active site 1249526006632 motif I; other site 1249526006633 motif II; other site 1249526006634 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249526006635 EamA-like transporter family; Region: EamA; cl17759 1249526006636 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1249526006637 EamA-like transporter family; Region: EamA; pfam00892 1249526006638 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1249526006639 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1249526006640 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1249526006641 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1249526006642 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1249526006643 substrate binding pocket [chemical binding]; other site 1249526006644 chain length determination region; other site 1249526006645 substrate-Mg2+ binding site; other site 1249526006646 catalytic residues [active] 1249526006647 aspartate-rich region 1; other site 1249526006648 active site lid residues [active] 1249526006649 aspartate-rich region 2; other site 1249526006650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1249526006651 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1249526006652 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1249526006653 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1249526006654 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1249526006655 NAD(P) binding site [chemical binding]; other site 1249526006656 homotetramer interface [polypeptide binding]; other site 1249526006657 homodimer interface [polypeptide binding]; other site 1249526006658 active site 1249526006659 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 1249526006660 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1249526006661 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1249526006662 DNA binding site [nucleotide binding] 1249526006663 catalytic residue [active] 1249526006664 H2TH interface [polypeptide binding]; other site 1249526006665 putative catalytic residues [active] 1249526006666 turnover-facilitating residue; other site 1249526006667 intercalation triad [nucleotide binding]; other site 1249526006668 8OG recognition residue [nucleotide binding]; other site 1249526006669 putative reading head residues; other site 1249526006670 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1249526006671 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1249526006672 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1249526006673 dimerization interface [polypeptide binding]; other site 1249526006674 putative tRNAtyr binding site [nucleotide binding]; other site 1249526006675 putative active site [active] 1249526006676 hypothetical protein; Reviewed; Region: PRK01637 1249526006677 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1249526006678 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1249526006679 putative catalytic cysteine [active] 1249526006680 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1249526006681 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526006682 ATP binding site [chemical binding]; other site 1249526006683 Mg2+ binding site [ion binding]; other site 1249526006684 G-X-G motif; other site 1249526006685 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1249526006686 ATP binding site [chemical binding]; other site 1249526006687 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1249526006688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1249526006689 RelB antitoxin; Region: RelB; cl01171 1249526006690 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1249526006691 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1249526006692 bacterial Hfq-like; Region: Hfq; cd01716 1249526006693 hexamer interface [polypeptide binding]; other site 1249526006694 Sm1 motif; other site 1249526006695 RNA binding site [nucleotide binding]; other site 1249526006696 Sm2 motif; other site 1249526006697 GTPase HflX; Provisional; Region: PRK11058 1249526006698 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1249526006699 HflX GTPase family; Region: HflX; cd01878 1249526006700 G1 box; other site 1249526006701 GTP/Mg2+ binding site [chemical binding]; other site 1249526006702 Switch I region; other site 1249526006703 G2 box; other site 1249526006704 G3 box; other site 1249526006705 Switch II region; other site 1249526006706 G4 box; other site 1249526006707 G5 box; other site 1249526006708 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1249526006709 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249526006710 trimer interface [polypeptide binding]; other site 1249526006711 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249526006712 trimer interface [polypeptide binding]; other site 1249526006713 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1249526006714 trimer interface [polypeptide binding]; other site 1249526006715 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1249526006716 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1249526006717 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1249526006718 YadA-like C-terminal region; Region: YadA; pfam03895 1249526006719 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1249526006720 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1249526006721 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1249526006722 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1249526006723 nucleotide binding site [chemical binding]; other site 1249526006724 chaperone protein DnaJ; Provisional; Region: PRK10767 1249526006725 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1249526006726 HSP70 interaction site [polypeptide binding]; other site 1249526006727 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1249526006728 substrate binding site [polypeptide binding]; other site 1249526006729 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1249526006730 Zn binding sites [ion binding]; other site 1249526006731 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1249526006732 dimer interface [polypeptide binding]; other site 1249526006733 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1249526006734 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1249526006735 tetramer interface [polypeptide binding]; other site 1249526006736 heme binding pocket [chemical binding]; other site 1249526006737 NADPH binding site [chemical binding]; other site 1249526006738 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1249526006739 CPxP motif; other site 1249526006740 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1249526006741 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1249526006742 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1249526006743 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1249526006744 metal binding site [ion binding]; metal-binding site 1249526006745 dimer interface [polypeptide binding]; other site 1249526006746 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1249526006747 ArsC family; Region: ArsC; pfam03960 1249526006748 putative catalytic residues [active] 1249526006749 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1249526006750 dihydropteroate synthase; Region: DHPS; TIGR01496 1249526006751 substrate binding pocket [chemical binding]; other site 1249526006752 dimer interface [polypeptide binding]; other site 1249526006753 inhibitor binding site; inhibition site 1249526006754 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1249526006755 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1249526006756 RNA binding surface [nucleotide binding]; other site 1249526006757 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1249526006758 active site 1249526006759 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1249526006760 Conserved TM helix; Region: TM_helix; pfam05552 1249526006761 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1249526006762 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1249526006763 Patatin-like phospholipase; Region: Patatin; pfam01734 1249526006764 active site 1249526006765 nucleophile elbow; other site 1249526006766 Predicted flavoprotein [General function prediction only]; Region: COG0431 1249526006767 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1249526006768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1249526006769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1249526006770 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1249526006771 dimerization interface [polypeptide binding]; other site 1249526006772 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1249526006773 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1249526006774 active site 1249526006775 FMN binding site [chemical binding]; other site 1249526006776 substrate binding site [chemical binding]; other site 1249526006777 homotetramer interface [polypeptide binding]; other site 1249526006778 catalytic residue [active] 1249526006779 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1249526006780 dimer interface [polypeptide binding]; other site 1249526006781 FMN binding site [chemical binding]; other site 1249526006782 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1249526006783 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1249526006784 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1249526006785 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1249526006786 putative NAD(P) binding site [chemical binding]; other site 1249526006787 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1249526006788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1249526006789 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1249526006790 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1249526006791 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1249526006792 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1249526006793 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1249526006794 putative NAD(P) binding site [chemical binding]; other site 1249526006795 putative substrate binding site [chemical binding]; other site 1249526006796 catalytic Zn binding site [ion binding]; other site 1249526006797 structural Zn binding site [ion binding]; other site 1249526006798 dimer interface [polypeptide binding]; other site 1249526006799 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1249526006800 S-formylglutathione hydrolase; Region: PLN02442 1249526006801 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1249526006802 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1249526006803 phosphate binding site [ion binding]; other site 1249526006804 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1249526006805 putative active site [active] 1249526006806 Ap4A binding site [chemical binding]; other site 1249526006807 nudix motif; other site 1249526006808 putative metal binding site [ion binding]; other site 1249526006809 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1249526006810 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1249526006811 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1249526006812 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1249526006813 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1249526006814 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526006815 motif II; other site 1249526006816 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1249526006817 PemK-like protein; Region: PemK; pfam02452 1249526006818 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1249526006819 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1249526006820 active site 1249526006821 HIGH motif; other site 1249526006822 dimer interface [polypeptide binding]; other site 1249526006823 KMSKS motif; other site 1249526006824 Peptidase family M48; Region: Peptidase_M48; pfam01435 1249526006825 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1249526006826 dimer interface [polypeptide binding]; other site 1249526006827 substrate binding site [chemical binding]; other site 1249526006828 metal binding sites [ion binding]; metal-binding site 1249526006829 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1249526006830 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1249526006831 dimerization interface [polypeptide binding]; other site 1249526006832 thymidylate kinase; Validated; Region: tmk; PRK00698 1249526006833 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1249526006834 TMP-binding site; other site 1249526006835 ATP-binding site [chemical binding]; other site 1249526006836 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1249526006837 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1249526006838 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1249526006839 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1249526006840 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1249526006841 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1249526006842 active site 1249526006843 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1249526006844 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1249526006845 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249526006846 putative active site [active] 1249526006847 putative metal binding site [ion binding]; other site 1249526006848 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1249526006849 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1249526006850 active site 1249526006851 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1249526006852 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249526006853 DNA-binding site [nucleotide binding]; DNA binding site 1249526006854 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1249526006855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526006856 homodimer interface [polypeptide binding]; other site 1249526006857 catalytic residue [active] 1249526006858 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1249526006859 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1249526006860 active site 1249526006861 multimer interface [polypeptide binding]; other site 1249526006862 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1249526006863 predicted active site [active] 1249526006864 catalytic triad [active] 1249526006865 transaldolase-like protein; Provisional; Region: PTZ00411 1249526006866 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1249526006867 active site 1249526006868 dimer interface [polypeptide binding]; other site 1249526006869 catalytic residue [active] 1249526006870 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1249526006871 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1249526006872 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 1249526006873 putative metal binding site [ion binding]; other site 1249526006874 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1249526006875 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1249526006876 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1249526006877 active site 1249526006878 HIGH motif; other site 1249526006879 KMSK motif region; other site 1249526006880 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1249526006881 tRNA binding surface [nucleotide binding]; other site 1249526006882 anticodon binding site; other site 1249526006883 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1249526006884 GTP1/OBG; Region: GTP1_OBG; pfam01018 1249526006885 Obg GTPase; Region: Obg; cd01898 1249526006886 G1 box; other site 1249526006887 GTP/Mg2+ binding site [chemical binding]; other site 1249526006888 Switch I region; other site 1249526006889 G2 box; other site 1249526006890 G3 box; other site 1249526006891 Switch II region; other site 1249526006892 G4 box; other site 1249526006893 G5 box; other site 1249526006894 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1249526006895 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1249526006896 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1249526006897 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1249526006898 heme exporter protein CcmC; Region: ccmC; TIGR01191 1249526006899 heme exporter protein CcmB; Region: ccmB; TIGR01190 1249526006900 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1249526006901 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1249526006902 Walker A/P-loop; other site 1249526006903 ATP binding site [chemical binding]; other site 1249526006904 Q-loop/lid; other site 1249526006905 ABC transporter signature motif; other site 1249526006906 Walker B; other site 1249526006907 D-loop; other site 1249526006908 H-loop/switch region; other site 1249526006909 DNA replication initiation factor; Validated; Region: PRK06893 1249526006910 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1249526006911 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1249526006912 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1249526006913 peptide binding site [polypeptide binding]; other site 1249526006914 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1249526006915 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526006916 dimer interface [polypeptide binding]; other site 1249526006917 conserved gate region; other site 1249526006918 putative PBP binding loops; other site 1249526006919 ABC-ATPase subunit interface; other site 1249526006920 dipeptide transporter; Provisional; Region: PRK10913 1249526006921 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1249526006922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1249526006923 dimer interface [polypeptide binding]; other site 1249526006924 conserved gate region; other site 1249526006925 putative PBP binding loops; other site 1249526006926 ABC-ATPase subunit interface; other site 1249526006927 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1249526006928 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526006929 Walker A/P-loop; other site 1249526006930 ATP binding site [chemical binding]; other site 1249526006931 Q-loop/lid; other site 1249526006932 ABC transporter signature motif; other site 1249526006933 Walker B; other site 1249526006934 D-loop; other site 1249526006935 H-loop/switch region; other site 1249526006936 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1249526006937 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1249526006938 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1249526006939 Walker A/P-loop; other site 1249526006940 ATP binding site [chemical binding]; other site 1249526006941 Q-loop/lid; other site 1249526006942 ABC transporter signature motif; other site 1249526006943 Walker B; other site 1249526006944 D-loop; other site 1249526006945 H-loop/switch region; other site 1249526006946 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1249526006947 RNA polymerase sigma factor; Provisional; Region: PRK12530 1249526006948 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1249526006949 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1249526006950 DNA binding residues [nucleotide binding] 1249526006951 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1249526006952 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1249526006953 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526006954 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526006955 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526006956 Integrase core domain; Region: rve; pfam00665 1249526006957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526006958 Integrase core domain; Region: rve_3; pfam13683 1249526006959 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1249526006960 putative inner membrane peptidase; Provisional; Region: PRK11778 1249526006961 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1249526006962 tandem repeat interface [polypeptide binding]; other site 1249526006963 oligomer interface [polypeptide binding]; other site 1249526006964 active site residues [active] 1249526006965 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1249526006966 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1249526006967 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1249526006968 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1249526006969 eyelet of channel; other site 1249526006970 trimer interface [polypeptide binding]; other site 1249526006971 Winged helix-turn helix; Region: HTH_29; pfam13551 1249526006972 Helix-turn-helix domain; Region: HTH_28; pfam13518 1249526006973 Homeodomain-like domain; Region: HTH_32; pfam13565 1249526006974 Integrase core domain; Region: rve; pfam00665 1249526006975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1249526006976 Integrase core domain; Region: rve_3; pfam13683 1249526006977 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1249526006978 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1249526006979 WzyE protein; Region: WzyE; cl11643 1249526006980 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1249526006981 glutamine synthetase; Provisional; Region: glnA; PRK09469 1249526006982 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1249526006983 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1249526006984 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1249526006985 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1249526006986 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1249526006987 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1249526006988 inhibitor-cofactor binding pocket; inhibition site 1249526006989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526006990 catalytic residue [active] 1249526006991 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1249526006992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1249526006993 Coenzyme A binding pocket [chemical binding]; other site 1249526006994 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1249526006995 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1249526006996 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1249526006997 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1249526006998 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1249526006999 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1249526007000 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1249526007001 Mg++ binding site [ion binding]; other site 1249526007002 putative catalytic motif [active] 1249526007003 substrate binding site [chemical binding]; other site 1249526007004 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1249526007005 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1249526007006 inhibitor-cofactor binding pocket; inhibition site 1249526007007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1249526007008 catalytic residue [active] 1249526007009 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1249526007010 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1249526007011 putative active site [active] 1249526007012 putative NTP binding site [chemical binding]; other site 1249526007013 putative nucleic acid binding site [nucleotide binding]; other site 1249526007014 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1249526007015 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1249526007016 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1249526007017 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1249526007018 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1249526007019 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1249526007020 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1249526007021 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1249526007022 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1249526007023 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1249526007024 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1249526007025 DNA binding site [nucleotide binding] 1249526007026 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1249526007027 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1249526007028 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1249526007029 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1249526007030 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1249526007031 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1249526007032 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1249526007033 RPB1 interaction site [polypeptide binding]; other site 1249526007034 RPB11 interaction site [polypeptide binding]; other site 1249526007035 RPB10 interaction site [polypeptide binding]; other site 1249526007036 RPB3 interaction site [polypeptide binding]; other site 1249526007037 DsrH like protein; Region: DsrH; cl17347 1249526007038 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 1249526007039 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1249526007040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1249526007041 YheO-like PAS domain; Region: PAS_6; pfam08348 1249526007042 HTH domain; Region: HTH_22; pfam13309 1249526007043 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1249526007044 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1249526007045 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249526007046 SlyX; Region: SlyX; cl01090 1249526007047 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1249526007048 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1249526007049 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1249526007050 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1249526007051 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526007052 FeS/SAM binding site; other site 1249526007053 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1249526007054 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1249526007055 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1249526007056 Nucleoside recognition; Region: Gate; pfam07670 1249526007057 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1249526007058 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526007059 FeS/SAM binding site; other site 1249526007060 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 1249526007061 Pyruvate formate lyase; Region: PFL; pfam02901 1249526007062 Pleckstrin homology-like domain; Region: PH-like; cl17171 1249526007063 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1249526007064 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1249526007065 core dimer interface [polypeptide binding]; other site 1249526007066 peripheral dimer interface [polypeptide binding]; other site 1249526007067 L10 interface [polypeptide binding]; other site 1249526007068 L11 interface [polypeptide binding]; other site 1249526007069 putative EF-Tu interaction site [polypeptide binding]; other site 1249526007070 putative EF-G interaction site [polypeptide binding]; other site 1249526007071 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 1249526007072 23S rRNA interface [nucleotide binding]; other site 1249526007073 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1249526007074 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1249526007075 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1249526007076 dimer interface [polypeptide binding]; other site 1249526007077 active site 1249526007078 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1249526007079 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1249526007080 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1249526007081 dimer interface [polypeptide binding]; other site 1249526007082 active site 1249526007083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1249526007084 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1249526007085 NAD(P) binding site [chemical binding]; other site 1249526007086 active site 1249526007087 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1249526007088 Divergent AAA domain; Region: AAA_4; pfam04326 1249526007089 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1249526007090 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1249526007091 putative active site 1 [active] 1249526007092 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1249526007093 dimer interface [polypeptide binding]; other site 1249526007094 active site 1249526007095 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 1249526007096 mRNA/rRNA interface [nucleotide binding]; other site 1249526007097 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1249526007098 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1249526007099 23S rRNA interface [nucleotide binding]; other site 1249526007100 L7/L12 interface [polypeptide binding]; other site 1249526007101 putative thiostrepton binding site; other site 1249526007102 L25 interface [polypeptide binding]; other site 1249526007103 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1249526007104 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1249526007105 putative homodimer interface [polypeptide binding]; other site 1249526007106 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1249526007107 heterodimer interface [polypeptide binding]; other site 1249526007108 homodimer interface [polypeptide binding]; other site 1249526007109 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1249526007110 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1249526007111 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1249526007112 DNA binding site [nucleotide binding] 1249526007113 domain linker motif; other site 1249526007114 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1249526007115 putative ligand binding site [chemical binding]; other site 1249526007116 putative dimerization interface [polypeptide binding]; other site 1249526007117 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1249526007118 active site 1249526007119 P-loop; other site 1249526007120 phosphorylation site [posttranslational modification] 1249526007121 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1249526007122 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1249526007123 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1249526007124 DNA protecting protein DprA; Region: dprA; TIGR00732 1249526007125 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1249526007126 active site 1249526007127 catalytic residues [active] 1249526007128 metal binding site [ion binding]; metal-binding site 1249526007129 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1249526007130 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1249526007131 NADP binding site [chemical binding]; other site 1249526007132 homopentamer interface [polypeptide binding]; other site 1249526007133 substrate binding site [chemical binding]; other site 1249526007134 active site 1249526007135 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1249526007136 active site 1 [active] 1249526007137 dimer interface [polypeptide binding]; other site 1249526007138 active site 2 [active] 1249526007139 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1249526007140 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1249526007141 Organiser of macrodomain of Terminus of chromosome; Region: MatP; pfam06303 1249526007142 outer membrane protein A; Reviewed; Region: PRK10808 1249526007143 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1249526007144 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1249526007145 ligand binding site [chemical binding]; other site 1249526007146 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1249526007147 FAD binding domain; Region: FAD_binding_4; pfam01565 1249526007148 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1249526007149 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1249526007150 CoenzymeA binding site [chemical binding]; other site 1249526007151 subunit interaction site [polypeptide binding]; other site 1249526007152 PHB binding site; other site 1249526007153 membrane protein insertase; Provisional; Region: PRK01318 1249526007154 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1249526007155 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1249526007156 dimer interface [polypeptide binding]; other site 1249526007157 catalytic triad [active] 1249526007158 peroxidatic and resolving cysteines [active] 1249526007159 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1249526007160 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1249526007161 putative acyl-acceptor binding pocket; other site 1249526007162 FtsI repressor; Provisional; Region: PRK10883 1249526007163 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1249526007164 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1249526007165 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1249526007166 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1249526007167 pyridoxamine kinase; Validated; Region: PRK05756 1249526007168 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1249526007169 dimer interface [polypeptide binding]; other site 1249526007170 pyridoxal binding site [chemical binding]; other site 1249526007171 ATP binding site [chemical binding]; other site 1249526007172 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1249526007173 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1249526007174 catalytic triad [active] 1249526007175 putative active site [active] 1249526007176 autotransporter-associated beta strand repeat; Region: autotrns_rpt; TIGR02601 1249526007177 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1249526007178 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1249526007179 intersubunit interface [polypeptide binding]; other site 1249526007180 active site 1249526007181 Zn2+ binding site [ion binding]; other site 1249526007182 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1249526007183 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1249526007184 AP (apurinic/apyrimidinic) site pocket; other site 1249526007185 DNA interaction; other site 1249526007186 Metal-binding active site; metal-binding site 1249526007187 transcriptional repressor UlaR; Provisional; Region: PRK13509 1249526007188 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1249526007189 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1249526007190 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1249526007191 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1249526007192 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 1249526007193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1249526007194 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1249526007195 active site 1249526007196 P-loop; other site 1249526007197 phosphorylation site [posttranslational modification] 1249526007198 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1249526007199 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1249526007200 active site 1249526007201 metal binding site [ion binding]; metal-binding site 1249526007202 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1249526007203 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1249526007204 active site 1249526007205 phosphorylation site [posttranslational modification] 1249526007206 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1249526007207 active site 1249526007208 dimer interface [polypeptide binding]; other site 1249526007209 magnesium binding site [ion binding]; other site 1249526007210 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1249526007211 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1249526007212 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1249526007213 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1249526007214 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1249526007215 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1249526007216 Domain of unknown function DUF302; Region: DUF302; cl01364 1249526007217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1249526007218 Putative esterase; Region: Esterase; pfam00756 1249526007219 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1249526007220 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1249526007221 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1249526007222 Flavodoxin; Region: Flavodoxin_1; pfam00258 1249526007223 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1249526007224 FAD binding pocket [chemical binding]; other site 1249526007225 conserved FAD binding motif [chemical binding]; other site 1249526007226 phosphate binding motif [ion binding]; other site 1249526007227 beta-alpha-beta structure motif; other site 1249526007228 NAD binding pocket [chemical binding]; other site 1249526007229 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1249526007230 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1249526007231 23S rRNA interface [nucleotide binding]; other site 1249526007232 putative translocon interaction site; other site 1249526007233 signal recognition particle (SRP54) interaction site; other site 1249526007234 L23 interface [polypeptide binding]; other site 1249526007235 trigger factor interaction site; other site 1249526007236 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 1249526007237 23S rRNA interface [nucleotide binding]; other site 1249526007238 5S rRNA interface [nucleotide binding]; other site 1249526007239 putative antibiotic binding site [chemical binding]; other site 1249526007240 L25 interface [polypeptide binding]; other site 1249526007241 L27 interface [polypeptide binding]; other site 1249526007242 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1249526007243 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 1249526007244 G-X-X-G motif; other site 1249526007245 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1249526007246 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1249526007247 protein-rRNA interface [nucleotide binding]; other site 1249526007248 putative translocon binding site; other site 1249526007249 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1249526007250 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1249526007251 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1249526007252 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1249526007253 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1249526007254 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1249526007255 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1249526007256 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1249526007257 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1249526007258 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1249526007259 Class II fumarases; Region: Fumarase_classII; cd01362 1249526007260 active site 1249526007261 tetramer interface [polypeptide binding]; other site 1249526007262 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1249526007263 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1249526007264 active site 1249526007265 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1249526007266 substrate binding site [chemical binding]; other site 1249526007267 catalytic residues [active] 1249526007268 dimer interface [polypeptide binding]; other site 1249526007269 glutathionine S-transferase; Provisional; Region: PRK10542 1249526007270 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1249526007271 C-terminal domain interface [polypeptide binding]; other site 1249526007272 GSH binding site (G-site) [chemical binding]; other site 1249526007273 dimer interface [polypeptide binding]; other site 1249526007274 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1249526007275 dimer interface [polypeptide binding]; other site 1249526007276 N-terminal domain interface [polypeptide binding]; other site 1249526007277 substrate binding pocket (H-site) [chemical binding]; other site 1249526007278 protease TldD; Provisional; Region: tldD; PRK10735 1249526007279 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1249526007280 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1249526007281 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1249526007282 Iron-sulfur protein interface; other site 1249526007283 proximal quinone binding site [chemical binding]; other site 1249526007284 C-subunit interface; other site 1249526007285 distal quinone binding site; other site 1249526007286 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1249526007287 D-subunit interface [polypeptide binding]; other site 1249526007288 Iron-sulfur protein interface; other site 1249526007289 proximal quinone binding site [chemical binding]; other site 1249526007290 distal quinone binding site [chemical binding]; other site 1249526007291 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1249526007292 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1249526007293 catalytic loop [active] 1249526007294 iron binding site [ion binding]; other site 1249526007295 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1249526007296 L-aspartate oxidase; Provisional; Region: PRK06175 1249526007297 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1249526007298 poxB regulator PoxA; Provisional; Region: PRK09350 1249526007299 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1249526007300 motif 1; other site 1249526007301 dimer interface [polypeptide binding]; other site 1249526007302 active site 1249526007303 motif 2; other site 1249526007304 motif 3; other site 1249526007305 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1249526007306 EamA-like transporter family; Region: EamA; pfam00892 1249526007307 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 1249526007308 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1249526007309 BCCT family transporter; Region: BCCT; pfam02028 1249526007310 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1249526007311 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1249526007312 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1249526007313 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1249526007314 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1249526007315 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1249526007316 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1249526007317 Cation transport protein; Region: TrkH; cl17365 1249526007318 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1249526007319 hypothetical protein; Provisional; Region: PRK11568 1249526007320 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1249526007321 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1249526007322 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1249526007323 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1249526007324 putative active site [active] 1249526007325 substrate binding site [chemical binding]; other site 1249526007326 putative cosubstrate binding site; other site 1249526007327 catalytic site [active] 1249526007328 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1249526007329 substrate binding site [chemical binding]; other site 1249526007330 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1249526007331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526007332 Walker A/P-loop; other site 1249526007333 ATP binding site [chemical binding]; other site 1249526007334 Q-loop/lid; other site 1249526007335 ABC transporter signature motif; other site 1249526007336 Walker B; other site 1249526007337 D-loop; other site 1249526007338 H-loop/switch region; other site 1249526007339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1249526007340 Walker A/P-loop; other site 1249526007341 ATP binding site [chemical binding]; other site 1249526007342 Q-loop/lid; other site 1249526007343 ABC transporter signature motif; other site 1249526007344 Walker B; other site 1249526007345 D-loop; other site 1249526007346 H-loop/switch region; other site 1249526007347 Protein of unknown function, DUF479; Region: DUF479; cl01203 1249526007348 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1249526007349 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1249526007350 ABC-ATPase subunit interface; other site 1249526007351 dimer interface [polypeptide binding]; other site 1249526007352 putative PBP binding regions; other site 1249526007353 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1249526007354 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1249526007355 Walker A/P-loop; other site 1249526007356 ATP binding site [chemical binding]; other site 1249526007357 Q-loop/lid; other site 1249526007358 ABC transporter signature motif; other site 1249526007359 Walker B; other site 1249526007360 D-loop; other site 1249526007361 H-loop/switch region; other site 1249526007362 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1249526007363 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1249526007364 intersubunit interface [polypeptide binding]; other site 1249526007365 lipoyl synthase; Provisional; Region: PRK05481 1249526007366 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1249526007367 FeS/SAM binding site; other site 1249526007368 lipoate-protein ligase B; Provisional; Region: PRK14342 1249526007369 hypothetical protein; Provisional; Region: PRK04998 1249526007370 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1249526007371 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1249526007372 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1249526007373 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1249526007374 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1249526007375 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1249526007376 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1249526007377 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1249526007378 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1249526007379 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1249526007380 Oligomerisation domain; Region: Oligomerisation; cl00519 1249526007381 EamA-like transporter family; Region: EamA; cl17759 1249526007382 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1249526007383 EamA-like transporter family; Region: EamA; pfam00892 1249526007384 mannonate dehydratase; Provisional; Region: PRK03906 1249526007385 mannonate dehydratase; Region: uxuA; TIGR00695 1249526007386 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1249526007387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1249526007388 DNA-binding site [nucleotide binding]; DNA binding site 1249526007389 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1249526007390 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1249526007391 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1249526007392 putative NAD(P) binding site [chemical binding]; other site 1249526007393 catalytic Zn binding site [ion binding]; other site 1249526007394 structural Zn binding site [ion binding]; other site 1249526007395 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1249526007396 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1249526007397 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1249526007398 DctM-like transporters; Region: DctM; pfam06808 1249526007399 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1249526007400 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1249526007401 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1249526007402 putative NAD(P) binding site [chemical binding]; other site 1249526007403 active site 1249526007404 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1249526007405 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1249526007406 substrate binding site [chemical binding]; other site 1249526007407 ATP binding site [chemical binding]; other site 1249526007408 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1249526007409 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1249526007410 active site 1249526007411 intersubunit interface [polypeptide binding]; other site 1249526007412 catalytic residue [active] 1249526007413 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1249526007414 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1249526007415 MutS domain I; Region: MutS_I; pfam01624 1249526007416 MutS domain II; Region: MutS_II; pfam05188 1249526007417 MutS domain III; Region: MutS_III; pfam05192 1249526007418 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1249526007419 Walker A/P-loop; other site 1249526007420 ATP binding site [chemical binding]; other site 1249526007421 Q-loop/lid; other site 1249526007422 ABC transporter signature motif; other site 1249526007423 Walker B; other site 1249526007424 D-loop; other site 1249526007425 H-loop/switch region; other site 1249526007426 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1249526007427 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1249526007428 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1249526007429 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1249526007430 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 1249526007431 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1249526007432 catalytic residues [active] 1249526007433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1249526007434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526007435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1249526007436 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1249526007437 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1249526007438 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1249526007439 G1 box; other site 1249526007440 GTP/Mg2+ binding site [chemical binding]; other site 1249526007441 Switch I region; other site 1249526007442 G2 box; other site 1249526007443 Switch II region; other site 1249526007444 G3 box; other site 1249526007445 G4 box; other site 1249526007446 G5 box; other site 1249526007447 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1249526007448 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1249526007449 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 1249526007450 Ligand Binding Site [chemical binding]; other site 1249526007451 TilS substrate binding domain; Region: TilS; pfam09179 1249526007452 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1249526007453 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1249526007454 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1249526007455 active site 1249526007456 Int/Topo IB signature motif; other site 1249526007457 glutamate racemase; Provisional; Region: PRK00865 1249526007458 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1249526007459 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1249526007460 Chorismate lyase; Region: Chor_lyase; cl01230 1249526007461 uridine phosphorylase; Provisional; Region: PRK11178 1249526007462 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1249526007463 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1249526007464 motif II; other site 1249526007465 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1249526007466 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1249526007467 dimer interface [polypeptide binding]; other site 1249526007468 motif 1; other site 1249526007469 active site 1249526007470 motif 2; other site 1249526007471 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1249526007472 putative deacylase active site [active] 1249526007473 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1249526007474 active site 1249526007475 motif 3; other site 1249526007476 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1249526007477 anticodon binding site; other site 1249526007478 heat shock protein 90; Provisional; Region: PRK05218 1249526007479 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1249526007480 ATP binding site [chemical binding]; other site 1249526007481 Mg2+ binding site [ion binding]; other site 1249526007482 G-X-G motif; other site 1249526007483 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1249526007484 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1249526007485 oligomeric interface; other site 1249526007486 homodimer interface [polypeptide binding]; other site 1249526007487 putative active site [active] 1249526007488 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1249526007489 Pathogenicity locus; Region: Cdd1; pfam11731 1249526007490 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1249526007491 generic binding surface II; other site 1249526007492 ssDNA binding site; other site 1249526007493 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1249526007494 ATP binding site [chemical binding]; other site 1249526007495 putative Mg++ binding site [ion binding]; other site 1249526007496 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1249526007497 nucleotide binding region [chemical binding]; other site 1249526007498 ATP-binding site [chemical binding]; other site 1249526007499 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1249526007500 active site 1249526007501 tetramer interface [polypeptide binding]; other site 1249526007502 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1249526007503 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1249526007504 active site 1249526007505 substrate binding site [chemical binding]; other site 1249526007506 metal binding site [ion binding]; metal-binding site 1249526007507 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1249526007508 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1249526007509 P-loop; other site 1249526007510 Magnesium ion binding site [ion binding]; other site 1249526007511 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1249526007512 Magnesium ion binding site [ion binding]; other site 1249526007513 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1249526007514 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1249526007515 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1249526007516 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887